PubMed Mentions

The links below are to publications on PubMed referring to Anima scripts. This list is gathered weekly from PubMed automatically.

Publication/References
Integration of text- and data-mining using ontologies successfully selects disease gene candidates. Description: Tiffin, Nicki, et al. Integration of text- and data-mining using ontologies successfully selects disease gene candidates. ''Nucleic Acids Res''. 2005; '''33''' (5):1544-52
3D reconstruction and comparison of shapes of DNA minicircles observed by cryo-electron microscopy. Description: Amzallag, Arnaud, et al. 3D reconstruction and comparison of shapes of DNA minicircles observed by cryo-electron microscopy. ''Nucleic Acids Res''. 2006; '''34''' (18):e125
Identification of multiple distinct Snf2 subfamilies with conserved structural motifs. Description: Flaus, Andrew, et al. Identification of multiple distinct Snf2 subfamilies with conserved structural motifs. ''Nucleic Acids Res''. 2006; '''34''' (10):2887-905
pKD: re-designing protein pKa values. Description: Tynan-Connolly, Barbara M, et al. pKD: re-designing protein pKa values. ''Nucleic Acids Res''. 2006 Jul 1; '''34''' (Web Server issue):W48-51
A general pipeline for the development of anchor markers for comparative genomics in plants. Description: Fredslund, Jakob, et al. A general pipeline for the development of anchor markers for comparative genomics in plants. ''BMC Genomics''. 2006 Aug 14; '''7''': 207
The many faces of protein-protein interactions: A compendium of interface geometry. Description: Kim, Wan Kyu, et al. The many faces of protein-protein interactions: A compendium of interface geometry. ''PLoS Comput Biol''. 2006 Sep 29; '''2''' (9):e124
The human phylome. Description: Huerta-Cepas, Jaime, et al. The human phylome. ''Genome Biol''. 2007; '''8''' (6):R109
DIAL: a web server for the pairwise alignment of two RNA three-dimensional structures using nucleotide, dihedral angle and base-pairing similarities. Description: Ferre, F, et al. DIAL: a web server for the pairwise alignment of two RNA three-dimensional structures using nucleotide, dihedral angle and base-pairing similarities. ''Nucleic Acids Res''. 2007 Jul; '''35''' (Web Server issue):W659-68
Comparative analysis of protein structure alignments. Description: Mayr, Gabriele, et al. Comparative analysis of protein structure alignments. ''BMC Struct Biol''. 2007 Jul 26; '''7''': 50
Local coexpression domains in the genome of rice show no microsynteny with Arabidopsis domains. Description: Ren, Xin-Ying, et al. Local coexpression domains in the genome of rice show no microsynteny with Arabidopsis domains. ''Plant Mol Biol''. 2007 Sep; '''65''' (1-2):205-17
A simple method for combining genetic mapping data from multiple crosses and experimental designs. Description: Peirce, Jeremy L, et al. A simple method for combining genetic mapping data from multiple crosses and experimental designs. ''PLoS One''. 2007 Oct 17; '''2''' (10):e1036
A global analysis of NMR distance constraints from the PDB. Description: Vranken, Wim. A global analysis of NMR distance constraints from the PDB. ''J Biomol NMR''. 2007 Dec; '''39''' (4):303-14
Analysis of 142 genes resolves the rapid diversification of the rice genus. Description: Zou, Xin-Hui, et al. Analysis of 142 genes resolves the rapid diversification of the rice genus. ''Genome Biol''. 2008; '''9''' (3):R49
A nitrile hydratase in the eukaryote Monosiga brevicollis. Description: Foerstner, Konrad U, et al. A nitrile hydratase in the eukaryote Monosiga brevicollis. ''PLoS One''. 2008; '''3''' (12):e3976
Y-chromosome based evidence for pre-neolithic origin of the genetically homogeneous but diverse Sardinian population: inference for association scans. Description: Contu, Daniela, et al. Y-chromosome based evidence for pre-neolithic origin of the genetically homogeneous but diverse Sardinian population: inference for association scans. ''PLoS One''. 2008 Jan 9; '''3''' (1):e1430
OSIRISv1.2: a named entity recognition system for sequence variants of genes in biomedical literature. Description: Furlong, Laura I, et al. OSIRISv1.2: a named entity recognition system for sequence variants of genes in biomedical literature. ''BMC Bioinformatics''. 2008 Feb 5; '''9''': 84
Commonality of functional annotation: a method for prioritization of candidate genes from genome-wide linkage studies. Description: Shriner, Daniel, et al. Commonality of functional annotation: a method for prioritization of candidate genes from genome-wide linkage studies. ''Nucleic Acids Res''. 2008 Mar; '''36''' (4):e26
Lessons learnt from assembling screening libraries for drug discovery for neglected diseases. Description: Brenk, Ruth, et al. Lessons learnt from assembling screening libraries for drug discovery for neglected diseases. ''ChemMedChem''. 2008 Mar; '''3''' (3):435-44
Genome Reshuffling for Advanced Intercross Permutation (GRAIP): simulation and permutation for advanced intercross population analysis. Description: Peirce, Jeremy L, et al. Genome Reshuffling for Advanced Intercross Permutation (GRAIP): simulation and permutation for advanced intercross population analysis. ''PLoS One''. 2008 Apr 23; '''3''' (4):e1977
Double feature selection and cluster analyses in mining of microarray data from cotton. Description: Alabady, Magdy S, et al. Double feature selection and cluster analyses in mining of microarray data from cotton. ''BMC Genomics''. 2008 Jun 20; '''9''': 295
GeneCAT--novel webtools that combine BLAST and co-expression analyses. Description: Mutwil, Marek, et al. GeneCAT--novel webtools that combine BLAST and co-expression analyses. ''Nucleic Acids Res''. 2008 Jul 1; '''36''' (Web Server issue):W320-6
Identifying functional modules in protein-protein interaction networks: an integrated exact approach. Description: Dittrich, Marcus T, et al. Identifying functional modules in protein-protein interaction networks: an integrated exact approach. ''Bioinformatics''. 2008 Jul 1; '''24''' (13):i223-31
Self-consistent residual dipolar coupling based model-free analysis for the robust determination of nanosecond to microsecond protein dynamics. Description: Lakomek, Nils-Alexander, et al. Self-consistent residual dipolar coupling based model-free analysis for the robust determination of nanosecond to microsecond protein dynamics. ''J Biomol NMR''. 2008 Jul; '''41''' (3):139-55
Structural conservation versus functional divergence of maternally expressed microRNAs in the Dlk1/Gtl2 imprinting region. Description: Kircher, Martin, et al. Structural conservation versus functional divergence of maternally expressed microRNAs in the Dlk1/Gtl2 imprinting region. ''BMC Genomics''. 2008 Jul 23; '''9''': 346
Short strong hydrogen bonds in proteins: a case study of rhamnogalacturonan acetylesterase. Description: Langkilde, Annette, et al. Short strong hydrogen bonds in proteins: a case study of rhamnogalacturonan acetylesterase. ''Acta Crystallogr D Biol Crystallogr''. 2008 Aug; '''D64''' (Pt 8):851-63
Comparative phosphoproteomics reveals evolutionary and functional conservation of phosphorylation across eukaryotes. Description: Boekhorst, Jos, et al. Comparative phosphoproteomics reveals evolutionary and functional conservation of phosphorylation across eukaryotes. ''Genome Biol''. 2008 Oct 1; '''9''' (10):R144
Identification of new, well-populated amino-acid sidechain rotamers involving hydroxyl-hydrogen atoms and sulfhydryl-hydrogen atoms. Description: Ho, Bosco K, et al. Identification of new, well-populated amino-acid sidechain rotamers involving hydroxyl-hydrogen atoms and sulfhydryl-hydrogen atoms. ''BMC Struct Biol''. 2008 Oct 7; '''8''': 41
Small RNA deep sequencing reveals role for Arabidopsis thaliana RNA-dependent RNA polymerases in viral siRNA biogenesis. Description: Qi, Xiaopeng, et al. Small RNA deep sequencing reveals role for Arabidopsis thaliana RNA-dependent RNA polymerases in viral siRNA biogenesis. ''PLoS One''. 2009; '''4''' (3):e4971
Relationship between chemical shift value and accessible surface area for all amino acid atoms. Description: Vranken, Wim F, et al. Relationship between chemical shift value and accessible surface area for all amino acid atoms. ''BMC Struct Biol''. 2009 Apr 2; '''9''': 20
PTools: an opensource molecular docking library. Description: Saladin, Adrien, et al. PTools: an opensource molecular docking library. ''BMC Struct Biol''. 2009 May 1; '''9''': 27
In silico selection of RNA aptamers. Description: Chushak, Yaroslav, et al. In silico selection of RNA aptamers. ''Nucleic Acids Res''. 2009 Jul; '''37''' (12):e87
OptiTope--a web server for the selection of an optimal set of peptides for epitope-based vaccines. Description: Toussaint, Nora C, et al. OptiTope--a web server for the selection of an optimal set of peptides for epitope-based vaccines. ''Nucleic Acids Res''. 2009 Jul; '''37''' (Web Server issue):W617-22
Microarray comparative genomic hybridisation analysis incorporating genomic organisation, and application to enterobacterial plant pathogens. Description: Pritchard, Leighton, et al. Microarray comparative genomic hybridisation analysis incorporating genomic organisation, and application to enterobacterial plant pathogens. ''PLoS Comput Biol''. 2009 Aug; '''5''' (8):e1000473
Extracting transcription factor targets from ChIP-Seq data. Description: Tuteja, Geetu, et al. Extracting transcription factor targets from ChIP-Seq data. ''Nucleic Acids Res''. 2009 Sep; '''37''' (17):e113
TinkerCell: modular CAD tool for synthetic biology. Description: Chandran, Deepak, et al. TinkerCell: modular CAD tool for synthetic biology. ''J Biol Eng''. 2009 Oct 29; '''3''': 19
Population sequencing of two endocannabinoid metabolic genes identifies rare and common regulatory variants associated with extreme obesity and metabolite level. Description: Harismendy, Olivier, et al. Population sequencing of two endocannabinoid metabolic genes identifies rare and common regulatory variants associated with extreme obesity and metabolite level. ''Genome Biol''. 2010; '''11''' (11):R118
Opposing microRNA families regulate self-renewal in mouse embryonic stem cells. Description: Melton, Collin, et al. Opposing microRNA families regulate self-renewal in mouse embryonic stem cells. ''Nature''. 2010 Feb 4; '''463''' (7281):621-6
An empirical method for establishing positional confidence intervals tailored for composite interval mapping of QTL. Description: Crossett, Andrew, et al. An empirical method for establishing positional confidence intervals tailored for composite interval mapping of QTL. ''PLoS One''. 2010 Feb 9; '''5''' (2):e9039
A comparison of bacterial composition in diabetic ulcers and contralateral intact skin. Description: Gontcharova, Viktoria, et al. A comparison of bacterial composition in diabetic ulcers and contralateral intact skin. ''Open Microbiol J''. 2010 Mar 17; '''4''': 8-19
Recall and bias of retrieving gene expression microarray datasets through PubMed identifiers. Description: Piwowar, Heather, et al. Recall and bias of retrieving gene expression microarray datasets through PubMed identifiers. ''J Biomed Discov Collab''. 2010 Mar 28; '''5''': 7-20
A predicted physicochemically distinct sub-proteome associated with the intracellular organelle of the anammox bacterium Kuenenia stuttgartiensis. Description: Medema, Marnix H, et al. A predicted physicochemically distinct sub-proteome associated with the intracellular organelle of the anammox bacterium Kuenenia stuttgartiensis. ''BMC Genomics''. 2010 May 12; '''11''': 299
Identifying duplicate content using statistically improbable phrases. Description: Errami, Mounir, et al. Identifying duplicate content using statistically improbable phrases. ''Bioinformatics''. 2010 Jun 1; '''26''' (11):1453-7
VitAL: Viterbi algorithm for de novo peptide design. Description: Unal, E Besray, et al. VitAL: Viterbi algorithm for de novo peptide design. ''PLoS One''. 2010 Jun 2; '''5''' (6):e10926
A global network of transcription factors, involving E2A, EBF1 and Foxo1, that orchestrates B cell fate. Description: Lin, Yin C, et al. A global network of transcription factors, involving E2A, EBF1 and Foxo1, that orchestrates B cell fate. ''Nat Immunol''. 2010 Jul; '''11''' (7):635-43
Comparative analysis of secreted protein evolution using expressed sequence tags from four poplar leaf rusts (Melampsora spp.). Description: Joly, David L, et al. Comparative analysis of secreted protein evolution using expressed sequence tags from four poplar leaf rusts (Melampsora spp.). ''BMC Genomics''. 2010 Jul 8; '''11''': 422
Integration preferences of wildtype AAV-2 for consensus rep-binding sites at numerous loci in the human genome. Description: Huser, Daniela, et al. Integration preferences of wildtype AAV-2 for consensus rep-binding sites at numerous loci in the human genome. ''PLoS Pathog''. 2010 Jul 8; '''6''' (7):e1000985
ABC-SysBio--approximate Bayesian computation in Python with GPU support. Description: Liepe, Juliane, et al. ABC-SysBio--approximate Bayesian computation in Python with GPU support. ''Bioinformatics''. 2010 Jul 15; '''26''' (14):1797-9
Publishing Chinese medicine knowledge as Linked Data on the Web. Description: Zhao, Jun. Publishing Chinese medicine knowledge as Linked Data on the Web. ''Chin Med''. 2010 Jul 27; '''5''': 27
High-resolution profiling of the LEDGF/p75 chromatin interaction in the ENCODE region. Description: De Rijck, Jan, et al. High-resolution profiling of the LEDGF/p75 chromatin interaction in the ENCODE region. ''Nucleic Acids Res''. 2010 Oct; '''38''' (18):6135-47
Identification of regulatory RNAs in Bacillus subtilis. Description: Irnov, Irnov, et al. Identification of regulatory RNAs in Bacillus subtilis. ''Nucleic Acids Res''. 2010 Oct; '''38''' (19):6637-51
Straightforward and complete deposition of NMR data to the PDBe. Description: Penkett, Christopher J, et al. Straightforward and complete deposition of NMR data to the PDBe. ''J Biomol NMR''. 2010 Oct; '''48''' (2):85-92
Molecular characterization of the evolution of phagosomes. Description: Boulais, Jonathan, et al. Molecular characterization of the evolution of phagosomes. ''Mol Syst Biol''. 2010 Oct 19; '''6''': 423
Using protein design algorithms to understand the molecular basis of disease caused by protein-DNA interactions: the Pax6 example. Description: Alibes, Andreu, et al. Using protein design algorithms to understand the molecular basis of disease caused by protein-DNA interactions: the Pax6 example. ''Nucleic Acids Res''. 2010 Nov; '''38''' (21):7422-31
Deciphering the code for retroviral integration target site selection. Description: Santoni, Federico Andrea, et al. Deciphering the code for retroviral integration target site selection. ''PLoS Comput Biol''. 2010 Nov 24; '''6''' (11):e1001008
High-fidelity gene synthesis by retrieval of sequence-verified DNA identified using high-throughput pyrosequencing. Description: Matzas, Mark, et al. High-fidelity gene synthesis by retrieval of sequence-verified DNA identified using high-throughput pyrosequencing. ''Nat Biotechnol''. 2010 Dec; '''28''' (12):1291-4
Mining flexible-receptor docking experiments to select promising protein receptor snapshots. Description: Machado, Karina S, et al. Mining flexible-receptor docking experiments to select promising protein receptor snapshots. ''BMC Genomics''. 2010 Dec 22; '''11 Suppl 5''': S6
Effects of inversions on within- and between-species recombination and divergence. Description: Stevison, Laurie S, et al. Effects of inversions on within- and between-species recombination and divergence. ''Genome Biol Evol''. 2011; '''3''': 830-41
Evaluating experimental bias and completeness in comparative phosphoproteomics analysis. Description: Boekhorst, Jos, et al. Evaluating experimental bias and completeness in comparative phosphoproteomics analysis. ''PLoS One''. 2011; '''6''' (8):e23276
Examination of triacylglycerol biosynthetic pathways via de novo transcriptomic and proteomic analyses in an unsequenced microalga. Description: Guarnieri, Michael T, et al. Examination of triacylglycerol biosynthetic pathways via de novo transcriptomic and proteomic analyses in an unsequenced microalga. ''PLoS One''. 2011; '''6''' (10):e25851
First survey of the wheat chromosome 5A composition through a next generation sequencing approach. Description: Vitulo, Nicola, et al. First survey of the wheat chromosome 5A composition through a next generation sequencing approach. ''PLoS One''. 2011; '''6''' (10):e26421
Four small puzzles that Rosetta doesn't solve. Description: Das, Rhiju. Four small puzzles that Rosetta doesn't solve. ''PLoS One''. 2011; '''6''' (5):e20044
Predicting maximum lake depth from surrounding topography. Description: Hollister, Jeffrey W, et al. Predicting maximum lake depth from surrounding topography. ''PLoS One''. 2011; '''6''' (9):e25764
Reptiles and mammals have differentially retained long conserved noncoding sequences from the amniote ancestor. Description: Janes, D E, et al. Reptiles and mammals have differentially retained long conserved noncoding sequences from the amniote ancestor. ''Genome Biol Evol''. 2011; '''3''': 102-13
Selection in coastal Synechococcus (cyanobacteria) populations evaluated from environmental metagenomes. Description: Tai, Vera, et al. Selection in coastal Synechococcus (cyanobacteria) populations evaluated from environmental metagenomes. ''PLoS One''. 2011; '''6''' (9):e24249
Selection of an improved HDAC8 inhibitor through structure-based drug design. Description: Vijayakumar, Balakrishnan, et al. Selection of an improved HDAC8 inhibitor through structure-based drug design. ''Bioinformation''. 2011; '''7''' (3):134-41
Skin conductance response to the pain of others predicts later costly helping. Description: Hein, Grit, et al. Skin conductance response to the pain of others predicts later costly helping. ''PLoS One''. 2011; '''6''' (8):e22759
A simple model for the influence of meiotic conversion tracts on GC content. Description: Marsolier-Kergoat, Marie-Claude. A simple model for the influence of meiotic conversion tracts on GC content. ''PLoS One''. 2011 Jan 13; '''6''' (1):e16109
Investigating the effect of paralogs on microarray gene-set analysis. Description: Faure, Andre J, et al. Investigating the effect of paralogs on microarray gene-set analysis. ''BMC Bioinformatics''. 2011 Jan 24; '''12''': 29
RNA-seq analyses of blood-induced changes in gene expression in the mosquito vector species, Aedes aegypti. Description: Bonizzoni, Mariangela, et al. RNA-seq analyses of blood-induced changes in gene expression in the mosquito vector species, Aedes aegypti. ''BMC Genomics''. 2011 Jan 28; '''12''': 82
Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations. Description: Rouxel, Thierry, et al. Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations. ''Nat Commun''. 2011 Feb 15; '''2''': 202
High-throughput full-automatic synchrotron-based tomographic microscopy. Description: Mader, Kevin, et al. High-throughput full-automatic synchrotron-based tomographic microscopy. ''J Synchrotron Radiat''. 2011 Mar; '''18''' (Pt 2):117-24
Signalogs: orthology-based identification of novel signaling pathway components in three metazoans. Description: Korcsmaros, Tamas, et al. Signalogs: orthology-based identification of novel signaling pathway components in three metazoans. ''PLoS One''. 2011 May 3; '''6''' (5):e19240
Common and unique elements of the ABA-regulated transcriptome of Arabidopsis guard cells. Description: Wang, Rui-Sheng, et al. Common and unique elements of the ABA-regulated transcriptome of Arabidopsis guard cells. ''BMC Genomics''. 2011 May 9; '''12''': 216
Exploring the symbiotic pangenome of the nitrogen-fixing bacterium Sinorhizobium meliloti. Description: Galardini, Marco, et al. Exploring the symbiotic pangenome of the nitrogen-fixing bacterium Sinorhizobium meliloti. ''BMC Genomics''. 2011 May 12; '''12''': 235
Symbolic flux analysis for genome-scale metabolic networks. Description: Schryer, David W, et al. Symbolic flux analysis for genome-scale metabolic networks. ''BMC Syst Biol''. 2011 May 23; '''5''': 81
Inferring physical protein contacts from large-scale purification data of protein complexes. Description: Schelhorn, Sven-Eric, et al. Inferring physical protein contacts from large-scale purification data of protein complexes. ''Mol Cell Proteomics''. 2011 Jun; '''10''' (6):M110.004929
MicroRNA genes preferentially expressed in dendritic cells contain sites for conserved transcription factor binding motifs in their promoters. Description: Jansen, Bastiaan J H, et al. MicroRNA genes preferentially expressed in dendritic cells contain sites for conserved transcription factor binding motifs in their promoters. ''BMC Genomics''. 2011 Jun 27; '''12''': 330
DARIO: a ncRNA detection and analysis tool for next-generation sequencing experiments. Description: Fasold, Mario, et al. DARIO: a ncRNA detection and analysis tool for next-generation sequencing experiments. ''Nucleic Acids Res''. 2011 Jul; '''39''' (Web Server issue):W112-7
Quantitative and qualitative stem rust resistance factors in barley are associated with transcriptional suppression of defense regulons. Description: Moscou, Matthew J, et al. Quantitative and qualitative stem rust resistance factors in barley are associated with transcriptional suppression of defense regulons. ''PLoS Genet''. 2011 Jul; '''7''' (7):e1002208
Gatekeeper of pluripotency: a common Oct4 transcriptional network operates in mouse eggs and embryonic stem cells. Description: Zuccotti, Maurizio, et al. Gatekeeper of pluripotency: a common Oct4 transcriptional network operates in mouse eggs and embryonic stem cells. ''BMC Genomics''. 2011 Jul 5; '''12''': 1-13
Identification of lignin genes and regulatory sequences involved in secondary cell wall formation in Acacia auriculiformis and Acacia mangium via de novo transcriptome sequencing. Description: Wong, Melissa M L, et al. Identification of lignin genes and regulatory sequences involved in secondary cell wall formation in Acacia auriculiformis and Acacia mangium via de novo transcriptome sequencing. ''BMC Genomics''. 2011 Jul 5; '''12''': 342
Improved haplotype-based detection of ongoing selective sweeps towards an application in Arabidopsis thaliana. Description: Gunther, Torsten, et al. Improved haplotype-based detection of ongoing selective sweeps towards an application in Arabidopsis thaliana. ''BMC Res Notes''. 2011 Jul 5; '''4''': 232
Ammonia-oxidizing archaea and ammonia-oxidizing bacteria in six full-scale wastewater treatment bioreactors. Description: Zhang, Tong, et al. Ammonia-oxidizing archaea and ammonia-oxidizing bacteria in six full-scale wastewater treatment bioreactors. ''Appl Microbiol Biotechnol''. 2011 Aug; '''91''' (4):1215-25
Analyzing the functional properties of the creatine kinase system with multiscale 'sloppy' modeling. Description: Hettling, Hannes, et al. Analyzing the functional properties of the creatine kinase system with multiscale 'sloppy' modeling. ''PLoS Comput Biol''. 2011 Aug; '''7''' (8):e1002130
Analysis of the melon (Cucumis melo) small RNAome by high-throughput pyrosequencing. Description: Gonzalez-Ibeas, Daniel, et al. Analysis of the melon (Cucumis melo) small RNAome by high-throughput pyrosequencing. ''BMC Genomics''. 2011 Aug 3; '''12''': 393
The relationship between transcription initiation RNAs and CCCTC-binding factor (CTCF) localization. Description: Taft, Ryan J, et al. The relationship between transcription initiation RNAs and CCCTC-binding factor (CTCF) localization. ''Epigenetics Chromatin''. 2011 Aug 3; '''4''': 13
BKM-react, an integrated biochemical reaction database. Description: Lang, Maren, et al. BKM-react, an integrated biochemical reaction database. ''BMC Biochem''. 2011 Aug 8; '''12''': 42
The reconstructed ancestral subunit a functions as both V-ATPase isoforms Vph1p and Stv1p in Saccharomyces cerevisiae. Description: Finnigan, Gregory C, et al. The reconstructed ancestral subunit a functions as both V-ATPase isoforms Vph1p and Stv1p in Saccharomyces cerevisiae. ''Mol Biol Cell''. 2011 Sep; '''22''' (17):3176-91
A multi-cell, multi-scale model of vertebrate segmentation and somite formation. Description: Hester, Susan D, et al. A multi-cell, multi-scale model of vertebrate segmentation and somite formation. ''PLoS Comput Biol''. 2011 Oct; '''7''' (10):e1002155
The reference human nuclear mitochondrial sequences compilation validated and implemented on the UCSC genome browser. Description: Simone, Domenico, et al. The reference human nuclear mitochondrial sequences compilation validated and implemented on the UCSC genome browser. ''BMC Genomics''. 2011 Oct 20; '''12''': 517
Tandemly repeated DNA families in the mouse genome. Description: Komissarov, Aleksey S, et al. Tandemly repeated DNA families in the mouse genome. ''BMC Genomics''. 2011 Oct 28; '''12''': 531
Neural dynamics as sampling: a model for stochastic computation in recurrent networks of spiking neurons. Description: Buesing, Lars, et al. Neural dynamics as sampling: a model for stochastic computation in recurrent networks of spiking neurons. ''PLoS Comput Biol''. 2011 Nov; '''7''' (11):e1002211
A comparative study of mammalian diversification pattern. Description: Yu, Wenhua, et al. A comparative study of mammalian diversification pattern. ''Int J Biol Sci''. 2012; '''8''' (4):486-97
A genome-wide study of cytogenetic changes in colorectal cancer using SNP microarrays: opportunities for future personalized treatment. Description: Jasmine, Farzana, et al. A genome-wide study of cytogenetic changes in colorectal cancer using SNP microarrays: opportunities for future personalized treatment. ''PLoS One''. 2012; '''7''' (2):e31968
Alignment-free design of highly discriminatory diagnostic primer sets for Escherichia coli O104:H4 outbreak strains. Description: Pritchard, Leighton, et al. Alignment-free design of highly discriminatory diagnostic primer sets for Escherichia coli O104:H4 outbreak strains. ''PLoS One''. 2012; '''7''' (4):e34498
A novel protein kinase-like domain in a selenoprotein, widespread in the tree of life. Description: Dudkiewicz, Malgorzata, et al. A novel protein kinase-like domain in a selenoprotein, widespread in the tree of life. ''PLoS One''. 2012; '''7''' (2):e32138
Asymmetry indices for analysis and prediction of replication origins in eukaryotic genomes. Description: Marsolier-Kergoat, Marie-Claude. Asymmetry indices for analysis and prediction of replication origins in eukaryotic genomes. ''PLoS One''. 2012; '''7''' (9):e45050
Binding pocket optimization by computational protein design. Description: Malisi, Christoph, et al. Binding pocket optimization by computational protein design. ''PLoS One''. 2012; '''7''' (12):e52505
Biochemical and Bioinformatic Characterization of Type II Metacaspase Protein (TaeMCAII) from Wheat. Description: Piszczek, E, et al. Biochemical and Bioinformatic Characterization of Type II Metacaspase Protein (TaeMCAII) from Wheat. ''Plant Mol Biol Report''. 2012; '''30''': 1338-1347
Calcium input frequency, duration and amplitude differentially modulate the relative activation of calcineurin and CaMKII. Description: Li, Lu, et al. Calcium input frequency, duration and amplitude differentially modulate the relative activation of calcineurin and CaMKII. ''PLoS One''. 2012; '''7''' (9):e43810
Center-surround vs. distance-independent lateral connectivity in the olfactory bulb. Description: Kim, David H, et al. Center-surround vs. distance-independent lateral connectivity in the olfactory bulb. ''Front Neural Circuits''. 2012; '''6''': 34
Comparative genomic analysis of soybean flowering genes. Description: Jung, Chol-Hee, et al. Comparative genomic analysis of soybean flowering genes. ''PLoS One''. 2012; '''7''' (6):e38250
Comparative transcriptome profiling of the early response to Magnaporthe oryzae in durable resistant vs susceptible rice (Oryza sativa L.) genotypes. Description: Bagnaresi, Paolo, et al. Comparative transcriptome profiling of the early response to Magnaporthe oryzae in durable resistant vs susceptible rice (Oryza sativa L.) genotypes. ''PLoS One''. 2012; '''7''' (12):e51609
Comparative transcriptomics of the saprobic and parasitic growth phases in Coccidioides spp. Description: Whiston, Emily, et al. Comparative transcriptomics of the saprobic and parasitic growth phases in Coccidioides spp. ''PLoS One''. 2012; '''7''' (7):e41034
Computational identification and functional predictions of long noncoding RNA in Zea mays. Description: Boerner, Susan, et al. Computational identification and functional predictions of long noncoding RNA in Zea mays. ''PLoS One''. 2012; '''7''' (8):e43047
Congruent strain specific intestinal persistence of Lactobacillus plantarum in an intestine-mimicking in vitro system and in human volunteers. Description: van Bokhorst-van de Veen, Hermien, et al. Congruent strain specific intestinal persistence of Lactobacillus plantarum in an intestine-mimicking in vitro system and in human volunteers. ''PLoS One''. 2012; '''7''' (9):e44588
Dissecting the gene network of dietary restriction to identify evolutionarily conserved pathways and new functional genes. Description: Wuttke, Daniel, et al. Dissecting the gene network of dietary restriction to identify evolutionarily conserved pathways and new functional genes. ''PLoS Genet''. 2012; '''8''' (8):e1002834
Identification of cell surface proteins as potential immunotherapy targets in 12 pediatric cancers. Description: Orentas, Rimas J, et al. Identification of cell surface proteins as potential immunotherapy targets in 12 pediatric cancers. ''Front Oncol''. 2012; '''2''': 194
Identifying conserved and novel microRNAs in developing seeds of Brassica napus using deep sequencing. Description: Korbes, Ana Paula, et al. Identifying conserved and novel microRNAs in developing seeds of Brassica napus using deep sequencing. ''PLoS One''. 2012; '''7''' (11):e50663
Linkers of cell polarity and cell cycle regulation in the fission yeast protein interaction network. Description: Vaggi, Federico, et al. Linkers of cell polarity and cell cycle regulation in the fission yeast protein interaction network. ''PLoS Comput Biol''. 2012; '''8''' (10):e1002732
Mapping wintering waterfowl distributions using weather surveillance radar. Description: Buler, Jeffrey J, et al. Mapping wintering waterfowl distributions using weather surveillance radar. ''PLoS One''. 2012; '''7''' (7):e41571
Meta-analysis of two genome-wide association studies of bovine paratuberculosis. Description: Minozzi, Giulietta, et al. Meta-analysis of two genome-wide association studies of bovine paratuberculosis. ''PLoS One''. 2012; '''7''' (3):e32578
Metabolic pathway analysis and molecular docking analysis for identification of putative drug targets in Toxoplasma gondii: novel approach. Description: Gautam, Budhayash, et al. Metabolic pathway analysis and molecular docking analysis for identification of putative drug targets in Toxoplasma gondii: novel approach. ''Bioinformation''. 2012; '''8''' (3):134-41
microPIR: an integrated database of microRNA target sites within human promoter sequences. Description: Piriyapongsa, Jittima, et al. microPIR: an integrated database of microRNA target sites within human promoter sequences. ''PLoS One''. 2012; '''7''' (3):e33888
Molecular docking of (5E)-3-(2-aminoethyl)-5-(2- thienylmethylene)-1, 3-thiazolidine-2, 4-dione on HIV-1 reverse transcriptase: novel drug acting on enzyme. Description: Seniya, Chandrabhan, et al. Molecular docking of (5E)-3-(2-aminoethyl)-5-(2- thienylmethylene)-1, 3-thiazolidine-2, 4-dione on HIV-1 reverse transcriptase: novel drug acting on enzyme. ''Bioinformation''. 2012; '''8''' (14):678-83
New insights into the fundamental role of topological constraints as a determinant of two-way junction conformation. Description: Mustoe, Anthony M, et al. New insights into the fundamental role of topological constraints as a determinant of two-way junction conformation. ''Nucleic Acids Res''. 2012 Jan; '''40''' (2):892-904
Phylogenetic treatment and taxonomic revision of the trapdoor spider genus Aptostichus Simon (Araneae, Mygalomorphae, Euctenizidae). Description: Bond, Jason E. Phylogenetic treatment and taxonomic revision of the trapdoor spider genus Aptostichus Simon (Araneae, Mygalomorphae, Euctenizidae). ''Zookeys''. 2012; 1-209
Premature translational termination products are rapidly degraded substrates for MHC class I presentation. Description: Lacsina, Joshua R, et al. Premature translational termination products are rapidly degraded substrates for MHC class I presentation. ''PLoS One''. 2012; '''7''' (12):e51968
Seasonality of rotavirus in South Asia: a meta-analysis approach assessing associations with temperature, precipitation, and vegetation index. Description: Jagai, Jyotsna S, et al. Seasonality of rotavirus in South Asia: a meta-analysis approach assessing associations with temperature, precipitation, and vegetation index. ''PLoS One''. 2012; '''7''' (5):e38168
Structure-forming corals and sponges and their use as fish habitat in Bering Sea submarine canyons. Description: Miller, Robert J, et al. Structure-forming corals and sponges and their use as fish habitat in Bering Sea submarine canyons. ''PLoS One''. 2012; '''7''' (3):e33885
The C. elegans rab family: identification, classification and toolkit construction. Description: Gallegos, Maria E, et al. The C. elegans rab family: identification, classification and toolkit construction. ''PLoS One''. 2012; '''7''' (11):e49387
The predicted secretome of the plant pathogenic fungus Fusarium graminearum: a refined comparative analysis. Description: Brown, Neil A, et al. The predicted secretome of the plant pathogenic fungus Fusarium graminearum: a refined comparative analysis. ''PLoS One''. 2012; '''7''' (4):e33731
The relationship between respiration-related membrane potential slow oscillations and discharge patterns in mitral/tufted cells: what are the rules? Description: Briffaud, Virginie, et al. The relationship between respiration-related membrane potential slow oscillations and discharge patterns in mitral/tufted cells: what are the rules? ''PLoS One''. 2012; '''7''' (8):e43964
Transforming microbial genotyping: a robotic pipeline for genotyping bacterial strains. Description: O'Farrell, Brian, et al. Transforming microbial genotyping: a robotic pipeline for genotyping bacterial strains. ''PLoS One''. 2012; '''7''' (10):e48022
Transgene silencing and transgene-derived siRNA production in tobacco plants homozygous for an introduced AtMYB90 construct. Description: Velten, Jeff, et al. Transgene silencing and transgene-derived siRNA production in tobacco plants homozygous for an introduced AtMYB90 construct. ''PLoS One''. 2012; '''7''' (2):e30141
An alternative mode of microRNA target recognition. Description: Chi, Sung Wook, et al. An alternative mode of microRNA target recognition. ''Nat Struct Mol Biol''. 2012 Feb 12; '''19''' (3):321-7
Identification of genetic risk variants for deep vein thrombosis by multiplexed next-generation sequencing of 186 hemostatic/pro-inflammatory genes. Description: Lotta, Luca A, et al. Identification of genetic risk variants for deep vein thrombosis by multiplexed next-generation sequencing of 186 hemostatic/pro-inflammatory genes. ''BMC Med Genomics''. 2012 Feb 21; '''5''': 7
RNA-Seq quantification of the human small airway epithelium transcriptome. Description: Hackett, Neil R, et al. RNA-Seq quantification of the human small airway epithelium transcriptome. ''BMC Genomics''. 2012 Feb 29; '''13''': 82
Helix-length compensation studies reveal the adaptability of the VS ribozyme architecture. Description: Lacroix-Labonte, Julie, et al. Helix-length compensation studies reveal the adaptability of the VS ribozyme architecture. ''Nucleic Acids Res''. 2012 Mar; '''40''' (5):2284-93
Case study of sequence capture enrichment technology: identification of variation underpinning developmental syndromes in an amniote model. Description: Robb, Elizabeth A, et al. Case study of sequence capture enrichment technology: identification of variation underpinning developmental syndromes in an amniote model. ''Genes (Basel)''. 2012 Mar 26; '''3''' (2):233-47
Intuitive representation of surface properties of biomolecules using BioBlender. Description: Andrei, Raluca Mihaela, et al. Intuitive representation of surface properties of biomolecules using BioBlender. ''BMC Bioinformatics''. 2012 Mar 28; '''13 Suppl 4''': S16
Primates and mouse NumtS in the UCSC Genome Browser. Description: Calabrese, Francesco Maria, et al. Primates and mouse NumtS in the UCSC Genome Browser. ''BMC Bioinformatics''. 2012 Mar 28; '''13 Suppl 4''': S15
Motor deficits correlate with resting state motor network connectivity in patients with brain tumours. Description: Otten, Marc L, et al. Motor deficits correlate with resting state motor network connectivity in patients with brain tumours. ''Brain''. 2012 Apr; '''135''' (Pt 4):1017-26
An in silico platform for the design of heterologous pathways in nonnative metabolite production. Description: Chatsurachai, Sunisa, et al. An in silico platform for the design of heterologous pathways in nonnative metabolite production. ''BMC Bioinformatics''. 2012 May 11; '''13''': 93
Improving mapping and SNP-calling performance in multiplexed targeted next-generation sequencing. Description: Elsharawy, Abdou, et al. Improving mapping and SNP-calling performance in multiplexed targeted next-generation sequencing. ''BMC Genomics''. 2012 Aug 22; '''13''': 417
Convergence of the transcriptional responses to heat shock and singlet oxygen stresses. Description: Dufour, Yann S, et al. Convergence of the transcriptional responses to heat shock and singlet oxygen stresses. ''PLoS Genet''. 2012 Sep; '''8''' (9):e1002929
Phylogeny rather than ecology or lifestyle biases the construction of Escherichia coli-Shigella genetic exchange communities. Description: Skippington, Elizabeth, et al. Phylogeny rather than ecology or lifestyle biases the construction of Escherichia coli-Shigella genetic exchange communities. ''Open Biol''. 2012 Sep; '''2''' (9):120112
Plasmodium cynomolgi genome sequences provide insight into Plasmodium vivax and the monkey malaria clade. Description: Tachibana, Shin-Ichiro, et al. Plasmodium cynomolgi genome sequences provide insight into Plasmodium vivax and the monkey malaria clade. ''Nat Genet''. 2012 Sep; '''44''' (9):1051-5
Rapid casting of patterned vascular networks for perfusable engineered three-dimensional tissues. Description: Miller, Jordan S, et al. Rapid casting of patterned vascular networks for perfusable engineered three-dimensional tissues. ''Nat Mater''. 2012 Sep; '''11''' (9):768-74
Sequence and structural analyses of nuclear export signals in the NESdb database. Description: Xu, Darui, et al. Sequence and structural analyses of nuclear export signals in the NESdb database. ''Mol Biol Cell''. 2012 Sep; '''23''' (18):3677-93
The malaria parasite Plasmodium vivax exhibits greater genetic diversity than Plasmodium falciparum. Description: Neafsey, Daniel E, et al. The malaria parasite Plasmodium vivax exhibits greater genetic diversity than Plasmodium falciparum. ''Nat Genet''. 2012 Sep; '''44''' (9):1046-50
Transcriptome-scale homoeolog-specific transcript assemblies of bread wheat. Description: Schreiber, Andreas W, et al. Transcriptome-scale homoeolog-specific transcript assemblies of bread wheat. ''BMC Genomics''. 2012 Sep 19; '''13''': 492
'Shotgun DNA synthesis' for the high-throughput construction of large DNA molecules. Description: Kim, Hwangbeom, et al. 'Shotgun DNA synthesis' for the high-throughput construction of large DNA molecules. ''Nucleic Acids Res''. 2012 Oct; '''40''' (18):e140
Cytosine methylation and hydroxymethylation mark DNA for elimination in Oxytricha trifallax. Description: Bracht, John R, et al. Cytosine methylation and hydroxymethylation mark DNA for elimination in Oxytricha trifallax. ''Genome Biol''. 2012 Oct 17; '''13''' (10):R99
Comparative genomics of bacteria in the genus Providencia isolated from wild Drosophila melanogaster. Description: Galac, Madeline R, et al. Comparative genomics of bacteria in the genus Providencia isolated from wild Drosophila melanogaster. ''BMC Genomics''. 2012 Nov 13; '''13''': 612
A catalogue of putative unique transcripts from Douglas-fir (Pseudotsuga menziesii) based on 454 transcriptome sequencing of genetically diverse, drought stressed seedlings. Description: Muller, Thomas, et al. A catalogue of putative unique transcripts from Douglas-fir (Pseudotsuga menziesii) based on 454 transcriptome sequencing of genetically diverse, drought stressed seedlings. ''BMC Genomics''. 2012 Nov 28; '''13''': 673
Development of high-throughput SNP-based genotyping in Acacia auriculiformis x A. mangium hybrids using short-read transcriptome data. Description: Wong, Melissa M L, et al. Development of high-throughput SNP-based genotyping in Acacia auriculiformis x A. mangium hybrids using short-read transcriptome data. ''BMC Genomics''. 2012 Dec 24; '''13''': 726
Action at a distance: dependency sensitivity in a New World primate. Description: Ravignani, Andrea, et al. Action at a distance: dependency sensitivity in a New World primate. ''Biol Lett''. 2013; '''9''' (6):20130852
A deformable generic 3D model of haptoral anchor of Monogenean. Description: Teo, Bee Guan, et al. A deformable generic 3D model of haptoral anchor of Monogenean. ''PLoS One''. 2013; '''8''' (10):e77650
Adelie penguin population diet monitoring by analysis of food DNA in scats. Description: Jarman, Simon N, et al. Adelie penguin population diet monitoring by analysis of food DNA in scats. ''PLoS One''. 2013; '''8''' (12):e82227
A human torque teno virus encodes a microRNA that inhibits interferon signaling. Description: Kincaid, Rodney P, et al. A human torque teno virus encodes a microRNA that inhibits interferon signaling. ''PLoS Pathog''. 2013; '''9''' (12):e1003818
A midas plugin to enable construction of reproducible web-based image processing pipelines. Description: Grauer, Michael, et al. A midas plugin to enable construction of reproducible web-based image processing pipelines. ''Front Neuroinform''. 2013; '''7''': 46
A multispecies polyadenylation site model. Description: Ho, Eric S, et al. A multispecies polyadenylation site model. ''BMC Bioinformatics''. 2013; '''14 Suppl 2''': S9
Antiviral potential of 4-hydroxypanduratin A, secondary metabolite of Fingerroot, Boesenbergia pandurata (Schult.), towards Japanese Encephalitis virus NS2B/NS3 protease. Description: Seniya, Chandrabhan, et al. Antiviral potential of 4-hydroxypanduratin A, secondary metabolite of Fingerroot, Boesenbergia pandurata (Schult.), towards Japanese Encephalitis virus NS2B/NS3 protease. ''Bioinformation''. 2013; '''9''' (1):54-60
A second tubulin binding site on the kinesin-13 motor head domain is important during mitosis. Description: Zhang, Dong, et al. A second tubulin binding site on the kinesin-13 motor head domain is important during mitosis. ''PLoS One''. 2013; '''8''' (8):e73075
Association of RNAs with Bacillus subtilis Hfq. Description: Dambach, Michael, et al. Association of RNAs with Bacillus subtilis Hfq. ''PLoS One''. 2013; '''8''' (2):e55156
Atomic-accuracy prediction of protein loop structures through an RNA-inspired Ansatz. Description: Das, Rhiju. Atomic-accuracy prediction of protein loop structures through an RNA-inspired Ansatz. ''PLoS One''. 2013; '''8''' (10):e74830
Biases in the experimental annotations of protein function and their effect on our understanding of protein function space. Description: Schnoes, Alexandra M, et al. Biases in the experimental annotations of protein function and their effect on our understanding of protein function space. ''PLoS Comput Biol''. 2013; '''9''' (5):e1003063
Conservation and sex-specific splicing of the transformer gene in the calliphorids Cochliomyia hominivorax, Cochliomyia macellaria and Lucilia sericata. Description: Li, Fang, et al. Conservation and sex-specific splicing of the transformer gene in the calliphorids Cochliomyia hominivorax, Cochliomyia macellaria and Lucilia sericata. ''PLoS One''. 2013; '''8''' (2):e56303
Contrasting patterns of transposable element and satellite distribution on sex chromosomes (XY1Y2) in the dioecious plant Rumex acetosa. Description: Steflova, Pavlina, et al. Contrasting patterns of transposable element and satellite distribution on sex chromosomes (XY1Y2) in the dioecious plant Rumex acetosa. ''Genome Biol Evol''. 2013; '''5''' (4):769-82
CpG usage in RNA viruses: data and hypotheses. Description: Cheng, Xiaofei, et al. CpG usage in RNA viruses: data and hypotheses. ''PLoS One''. 2013; '''8''' (9):e74109
Differential expression of miR-145 in children with Kawasaki disease. Description: Shimizu, Chisato, et al. Differential expression of miR-145 in children with Kawasaki disease. ''PLoS One''. 2013; '''8''' (3):e58159
Differentially expressed transcripts and dysregulated signaling pathways and networks in African American breast cancer. Description: Stewart, Paul A, et al. Differentially expressed transcripts and dysregulated signaling pathways and networks in African American breast cancer. ''PLoS One''. 2013; '''8''' (12):e82460
Diversity and evolution of bacterial twin arginine translocase protein, TatC, reveals a protein secretion system that is evolving to fit its environmental niche. Description: Simone, Domenico, et al. Diversity and evolution of bacterial twin arginine translocase protein, TatC, reveals a protein secretion system that is evolving to fit its environmental niche. ''PLoS One''. 2013; '''8''' (11):e78742
Effects of taxon sampling in reconstructions of intron evolution. Description: Nikitin, Mikhail A, et al. Effects of taxon sampling in reconstructions of intron evolution. ''Int J Genomics''. 2013; '''2013''': 671316
Finite Element Modeling of CNS White Matter Kinematics: Use of a 3D RVE to Determine Material Properties. Description: Pan, Yi, et al. Finite Element Modeling of CNS White Matter Kinematics: Use of a 3D RVE to Determine Material Properties. ''Front Bioeng Biotechnol''. 2013; '''1''': 19
Functional genomic analyses of two morphologically distinct classes of Drosophila sensory neurons: post-mitotic roles of transcription factors in dendritic patterning. Description: Iyer, Eswar Prasad R, et al. Functional genomic analyses of two morphologically distinct classes of Drosophila sensory neurons: post-mitotic roles of transcription factors in dendritic patterning. ''PLoS One''. 2013; '''8''' (8):e72434
Fungal genes in context: genome architecture reflects regulatory complexity and function. Description: Noble, Luke M, et al. Fungal genes in context: genome architecture reflects regulatory complexity and function. ''Genome Biol Evol''. 2013; '''5''' (7):1336-52
FunGene: the functional gene pipeline and repository. Description: Fish, Jordan A, et al. FunGene: the functional gene pipeline and repository. ''Front Microbiol''. 2013; '''4''': 291
Galaxy tools and workflows for sequence analysis with applications in molecular plant pathology. Description: Cock, Peter J A, et al. Galaxy tools and workflows for sequence analysis with applications in molecular plant pathology. ''PeerJ''. 2013; '''1''': e167
Gene specific actions of thyroid hormone receptor subtypes. Description: Lin, Jean Z, et al. Gene specific actions of thyroid hormone receptor subtypes. ''PLoS One''. 2013; '''8''' (1):e52407
Genetic disruption of the copulatory plug in mice leads to severely reduced fertility. Description: Dean, Matthew D. Genetic disruption of the copulatory plug in mice leads to severely reduced fertility. ''PLoS Genet''. 2013; '''9''' (1):e1003185
Genome evolution in the cold: Antarctic icefish muscle transcriptome reveals selective duplications increasing mitochondrial function. Description: Coppe, Alessandro, et al. Genome evolution in the cold: Antarctic icefish muscle transcriptome reveals selective duplications increasing mitochondrial function. ''Genome Biol Evol''. 2013; '''5''' (1):45-60
High-resolution transcriptome and genome-wide dynamics of RNA polymerase and NusA in Mycobacterium tuberculosis. Description: Uplekar, Swapna, et al. High-resolution transcriptome and genome-wide dynamics of RNA polymerase and NusA in Mycobacterium tuberculosis. ''Nucleic Acids Res''. 2013 Jan; '''41''' (2):961-77
High-speed panoramic light-sheet microscopy reveals global endodermal cell dynamics. Description: Schmid, Benjamin, et al. High-speed panoramic light-sheet microscopy reveals global endodermal cell dynamics. ''Nat Commun''. 2013; '''4''': 2207
Horizontal transfer of a subtilisin gene from plants into an ancestor of the plant pathogenic fungal genus Colletotrichum. Description: Armijos Jaramillo, Vinicio Danilo, et al. Horizontal transfer of a subtilisin gene from plants into an ancestor of the plant pathogenic fungal genus Colletotrichum. ''PLoS One''. 2013; '''8''' (3):e59078
Lactobacillus paracasei comparative genomics: towards species pan-genome definition and exploitation of diversity. Description: Smokvina, Tamara, et al. Lactobacillus paracasei comparative genomics: towards species pan-genome definition and exploitation of diversity. ''PLoS One''. 2013; '''8''' (7):e68731
Life in an arsenic-containing gold mine: genome and physiology of the autotrophic arsenite-oxidizing bacterium rhizobium sp. NT-26. Description: Andres, Jeremy, et al. Life in an arsenic-containing gold mine: genome and physiology of the autotrophic arsenite-oxidizing bacterium rhizobium sp. NT-26. ''Genome Biol Evol''. 2013; '''5''' (5):934-53
Models for the evolution of GC content in asexual fungi Candida albicans and C. dubliniensis. Description: Marsolier-Kergoat, Marie-Claude. Models for the evolution of GC content in asexual fungi Candida albicans and C. dubliniensis. ''Genome Biol Evol''. 2013; '''5''' (11):2205-16
Patterns of population differentiation and natural selection on the celiac disease background risk network. Description: Sams, Aaron, et al. Patterns of population differentiation and natural selection on the celiac disease background risk network. ''PLoS One''. 2013; '''8''' (7):e70564
PedWiz: a web-based tool for pedigree informatics. Description: Song, Yeunjoo E, et al. PedWiz: a web-based tool for pedigree informatics. ''Front Genet''. 2013; '''4''': 189
Selection and phylogenetics of salmonid MHC class I: wild brown trout (Salmo trutta) differ from a non-native introduced strain. Description: O'Farrell, Brian, et al. Selection and phylogenetics of salmonid MHC class I: wild brown trout (Salmo trutta) differ from a non-native introduced strain. ''PLoS One''. 2013; '''8''' (5):e63035
Shotgun proteomic analysis of S-thiolation sites of guinea pig lens nuclear crystallins following oxidative stress in vivo. Description: Giblin, Frank J, et al. Shotgun proteomic analysis of S-thiolation sites of guinea pig lens nuclear crystallins following oxidative stress in vivo. ''Mol Vis''. 2013; '''19''': 267-80
Spatial analysis of "crazy quilts", a class of potentially random aesthetic artefacts. Description: Westphal-Fitch, Gesche, et al. Spatial analysis of "crazy quilts", a class of potentially random aesthetic artefacts. ''PLoS One''. 2013; '''8''' (9):e74055
Text Categorization of Heart, Lung, and Blood Studies in the Database of Genotypes and Phenotypes (dbGaP) Utilizing n-grams and Metadata Features. Description: Ross, Mindy K, et al. Text Categorization of Heart, Lung, and Blood Studies in the Database of Genotypes and Phenotypes (dbGaP) Utilizing n-grams and Metadata Features. ''Biomed Inform Insights''. 2013; '''6''': 35-45
The genomic signal of partial sweeps in Mimulus guttatus. Description: Kelly, John K, et al. The genomic signal of partial sweeps in Mimulus guttatus. ''Genome Biol Evol''. 2013; '''5''' (8):1457-69
The influence of 150-cavity binders on the dynamics of influenza A neuraminidases as revealed by molecular dynamics simulations and combined clustering. Description: Greenway, Kyle T, et al. The influence of 150-cavity binders on the dynamics of influenza A neuraminidases as revealed by molecular dynamics simulations and combined clustering. ''PLoS One''. 2013; '''8''' (3):e59873
Using citizen science data to model the distributions of common songbirds of Turkey under different global climatic change scenarios. Description: Abolafya, Moris, et al. Using citizen science data to model the distributions of common songbirds of Turkey under different global climatic change scenarios. ''PLoS One''. 2013; '''8''' (7):e68037
Wolbachia variants induce differential protection to viruses in Drosophila melanogaster: a phenotypic and phylogenomic analysis. Description: Chrostek, Ewa, et al. Wolbachia variants induce differential protection to viruses in Drosophila melanogaster: a phenotypic and phylogenomic analysis. ''PLoS Genet''. 2013; '''9''' (12):e1003896
Knowledge Driven Variable Selection (KDVS) - a new approach to enrichment analysis of gene signatures obtained from high-throughput data. Description: Zycinski, Grzegorz, et al. Knowledge Driven Variable Selection (KDVS) - a new approach to enrichment analysis of gene signatures obtained from high-throughput data. ''Source Code Biol Med''. 2013 Jan 9; '''8''' (1):2
TNPO3 protects HIV-1 replication from CPSF6-mediated capsid stabilization in the host cell cytoplasm. Description: De Iaco, Alberto, et al. TNPO3 protects HIV-1 replication from CPSF6-mediated capsid stabilization in the host cell cytoplasm. ''Retrovirology''. 2013 Feb 15; '''10''': 20
Bacterial communities in different sections of a municipal wastewater treatment plant revealed by 16S rDNA 454 pyrosequencing. Description: Ye, Lin, et al. Bacterial communities in different sections of a municipal wastewater treatment plant revealed by 16S rDNA 454 pyrosequencing. ''Appl Microbiol Biotechnol''. 2013 Mar; '''97''' (6):2681-90
Potential of genetically modified oilseed rape for biofuels in Austria: Land use patterns and coexistence constraints could decrease domestic feedstock production. Description: Moser, Dietmar, et al. Potential of genetically modified oilseed rape for biofuels in Austria: Land use patterns and coexistence constraints could decrease domestic feedstock production. ''Biomass Bioenergy''. 2013 Mar; '''50''': 35-44
Transcriptome analysis of the bloodstream stage from the parasite Trypanosoma vivax. Description: Greif, Gonzalo, et al. Transcriptome analysis of the bloodstream stage from the parasite Trypanosoma vivax. ''BMC Genomics''. 2013 Mar 5; '''14''': 149
Locating sweet spots for screening hits and evaluating pan-assay interference filters from the performance analysis of two lead-like libraries. Description: Mok, N Yi, et al. Locating sweet spots for screening hits and evaluating pan-assay interference filters from the performance analysis of two lead-like libraries. ''J Chem Inf Model''. 2013 Mar 25; '''53''' (3):534-44
Endogenous retrotransposition activates oncogenic pathways in hepatocellular carcinoma. Description: Shukla, Ruchi, et al. Endogenous retrotransposition activates oncogenic pathways in hepatocellular carcinoma. ''Cell''. 2013 Mar 28; '''153''' (1):101-11
Structure-based comparative analysis and prediction of N-linked glycosylation sites in evolutionarily distant eukaryotes. Description: Lam, Phuc Vinh Nguyen, et al. Structure-based comparative analysis and prediction of N-linked glycosylation sites in evolutionarily distant eukaryotes. ''Genomics Proteomics Bioinformatics''. 2013 Apr; '''11''' (2):96-104
Vivaldi: visualization and validation of biomacromolecular NMR structures from the PDB. Description: Hendrickx, Pieter M S, et al. Vivaldi: visualization and validation of biomacromolecular NMR structures from the PDB. ''Proteins''. 2013 Apr; '''81''' (4):583-91
Differential transcript isoform usage pre- and post-zygotic genome activation in zebrafish. Description: Aanes, Havard, et al. Differential transcript isoform usage pre- and post-zygotic genome activation in zebrafish. ''BMC Genomics''. 2013 May 15; '''14''': 331
Modular, rule-based modeling for the design of eukaryotic synthetic gene circuits. Description: Marchisio, Mario Andrea, et al. Modular, rule-based modeling for the design of eukaryotic synthetic gene circuits. ''BMC Syst Biol''. 2013 May 27; '''7''': 42
Inference of kinship coefficients from Korean SNP genotyping data. Description: Park, Seong-Jin, et al. Inference of kinship coefficients from Korean SNP genotyping data. ''BMB Rep''. 2013 Jun; '''46''' (6):305-9
Genomic positions of co-expressed genes: echoes of chromosome organisation in gene expression data. Description: Szczepinska, Teresa, et al. Genomic positions of co-expressed genes: echoes of chromosome organisation in gene expression data. ''BMC Res Notes''. 2013 Jun 13; '''6''': 229
Reference genomes and transcriptomes of Nicotiana sylvestris and Nicotiana tomentosiformis. Description: Sierro, Nicolas, et al. Reference genomes and transcriptomes of Nicotiana sylvestris and Nicotiana tomentosiformis. ''Genome Biol''. 2013 Jun 17; '''14''' (6):R60
Ambushing the Ambush Hypothesis: predicting and evaluating off-frame codon frequencies in prokaryotic genomes. Description: Morgens, David W, et al. Ambushing the Ambush Hypothesis: predicting and evaluating off-frame codon frequencies in prokaryotic genomes. ''BMC Genomics''. 2013 Jun 22; '''14''': 418
A comprehensive analysis of the effects of the deaminase AID on the transcriptome and methylome of activated B cells. Description: Fritz, Eric L, et al. A comprehensive analysis of the effects of the deaminase AID on the transcriptome and methylome of activated B cells. ''Nat Immunol''. 2013 Jul; '''14''' (7):749-55
Genome conformation capture reveals that the Escherichia coli chromosome is organized by replication and transcription. Description: Cagliero, Cedric, et al. Genome conformation capture reveals that the Escherichia coli chromosome is organized by replication and transcription. ''Nucleic Acids Res''. 2013 Jul; '''41''' (12):6058-71
Generation and characterization of transgene-free human induced pluripotent stem cells and conversion to putative clinical-grade status. Description: Awe, Jason P, et al. Generation and characterization of transgene-free human induced pluripotent stem cells and conversion to putative clinical-grade status. ''Stem Cell Res Ther''. 2013 Jul 26; '''4''' (4):87
A-to-I RNA editing does not change with age in the healthy male rat brain. Description: Holmes, Andrew P, et al. A-to-I RNA editing does not change with age in the healthy male rat brain. ''Biogerontology''. 2013 Aug; '''14''' (4):395-400
Frequency of hybridization between Ostrinia nubilalis E-and Z-pheromone races in regions of sympatry within the United States. Description: Coates, Brad S, et al. Frequency of hybridization between Ostrinia nubilalis E-and Z-pheromone races in regions of sympatry within the United States. ''Ecol Evol''. 2013 Aug; '''3''' (8):2459-70
MHC genotyping of non-model organisms using next-generation sequencing: a new methodology to deal with artefacts and allelic dropout. Description: Sommer, Simone, et al. MHC genotyping of non-model organisms using next-generation sequencing: a new methodology to deal with artefacts and allelic dropout. ''BMC Genomics''. 2013 Aug 9; '''14''': 542
Solanum torvum responses to the root-knot nematode Meloidogyne incognita. Description: Bagnaresi, Paolo, et al. Solanum torvum responses to the root-knot nematode Meloidogyne incognita. ''BMC Genomics''. 2013 Aug 9; '''14''': 540
Virmid: accurate detection of somatic mutations with sample impurity inference. Description: Kim, Sangwoo, et al. Virmid: accurate detection of somatic mutations with sample impurity inference. ''Genome Biol''. 2013 Aug 29; '''14''' (8):R90
Epigenetic coordination of signaling pathways during the epithelial-mesenchymal transition. Description: Cieslik, Marcin, et al. Epigenetic coordination of signaling pathways during the epithelial-mesenchymal transition. ''Epigenetics Chromatin''. 2013 Sep 2; '''6''' (1):28
Quantitative analysis of the evolution of novelty in cinema through crowdsourced keywords. Description: Sreenivasan, Sameet. Quantitative analysis of the evolution of novelty in cinema through crowdsourced keywords. ''Sci Rep''. 2013 Sep 26; '''3''': 2758
Linking great apes genome evolution across time scales using polymorphism-aware phylogenetic models. Description: De Maio, Nicola, et al. Linking great apes genome evolution across time scales using polymorphism-aware phylogenetic models. ''Mol Biol Evol''. 2013 Oct; '''30''' (10):2249-62
Regulation of ClC-2 gating by intracellular ATP. Description: Stolting, Gabriel, et al. Regulation of ClC-2 gating by intracellular ATP. ''Pflugers Arch''. 2013 Oct; '''465''' (10):1423-37
Whole genome sequencing and de novo assembly identifies Sydney-like variant noroviruses and recombinants during the winter 2012/2013 outbreak in England. Description: Wong, T H Nicholas, et al. Whole genome sequencing and de novo assembly identifies Sydney-like variant noroviruses and recombinants during the winter 2012/2013 outbreak in England. ''Virol J''. 2013 Nov 13; '''10''': 335
Improved workflows for high throughput library preparation using the transposome-based Nextera system. Description: Lamble, Sarah, et al. Improved workflows for high throughput library preparation using the transposome-based Nextera system. ''BMC Biotechnol''. 2013 Nov 20; '''13''': 104
Protein kinase PKN1 represses Wnt/beta-catenin signaling in human melanoma cells. Description: James, Richard G, et al. Protein kinase PKN1 represses Wnt/beta-catenin signaling in human melanoma cells. ''J Biol Chem''. 2013 Nov 29; '''288''' (48):34658-70
Fragment-based Shape Signatures: a new tool for virtual screening and drug discovery. Description: Zauhar, Randy J, et al. Fragment-based Shape Signatures: a new tool for virtual screening and drug discovery. ''J Comput Aided Mol Des''. 2013 Dec; '''27''' (12):1009-36
Divergence of iron metabolism in wild Malaysian yeast. Description: Lee, Hana N, et al. Divergence of iron metabolism in wild Malaysian yeast. ''G3 (Bethesda)''. 2013 Dec 9; '''3''' (12):2187-94
Transmission and evolution of the Middle East respiratory syndrome coronavirus in Saudi Arabia: a descriptive genomic study. Description: Cotten, Matthew, et al. Transmission and evolution of the Middle East respiratory syndrome coronavirus in Saudi Arabia: a descriptive genomic study. ''Lancet''. 2013 Dec 14; '''382''' (9909):1993-2002
RNA-Seq optimization with eQTL gold standards. Description: Ellis, Shannon E, et al. RNA-Seq optimization with eQTL gold standards. ''BMC Genomics''. 2013 Dec 17; '''14''': 892
A better sequence-read simulator program for metagenomics. Description: Johnson, Stephen, et al. A better sequence-read simulator program for metagenomics. ''BMC Bioinformatics''. 2014; '''15 Suppl 9''': S14
A compound memristive synapse model for statistical learning through STDP in spiking neural networks. Description: Bill, Johannes, et al. A compound memristive synapse model for statistical learning through STDP in spiking neural networks. ''Front Neurosci''. 2014; '''8''': 412
A computational approach to qualitative analysis in large textual datasets. Description: Evans, Michael S. A computational approach to qualitative analysis in large textual datasets. ''PLoS One''. 2014; '''9''' (2):e87908
A genome-wide identification of genes undergoing recombination and positive selection in Neisseria. Description: Yu, Dong, et al. A genome-wide identification of genes undergoing recombination and positive selection in Neisseria. ''Biomed Res Int''. 2014; '''2014''': 815672
Amplification biases and consistent recovery of loci in a double-digest RAD-seq protocol. Description: DaCosta, Jeffrey M, et al. Amplification biases and consistent recovery of loci in a double-digest RAD-seq protocol. ''PLoS One''. 2014; '''9''' (9):e106713
An efficient strategy of screening for pathogens in wild-caught ticks and mosquitoes by reusing small RNA deep sequencing data. Description: Zhuang, Lu, et al. An efficient strategy of screening for pathogens in wild-caught ticks and mosquitoes by reusing small RNA deep sequencing data. ''PLoS One''. 2014; '''9''' (3):e90831
Bacterial community dynamics and taxa-time relationships within two activated sludge bioreactors. Description: Hai, Reti, et al. Bacterial community dynamics and taxa-time relationships within two activated sludge bioreactors. ''PLoS One''. 2014; '''9''' (3):e90175
Certain adenylated non-coding RNAs, including 5' leader sequences of primary microRNA transcripts, accumulate in mouse cells following depletion of the RNA helicase MTR4. Description: Dorweiler, Jane E, et al. Certain adenylated non-coding RNAs, including 5' leader sequences of primary microRNA transcripts, accumulate in mouse cells following depletion of the RNA helicase MTR4. ''PLoS One''. 2014; '''9''' (6):e99430
Comparative genomics of Australian isolates of the wheat stem rust pathogen Puccinia graminis f. sp. tritici reveals extensive polymorphism in candidate effector genes. Description: Upadhyaya, Narayana M, et al. Comparative genomics of Australian isolates of the wheat stem rust pathogen Puccinia graminis f. sp. tritici reveals extensive polymorphism in candidate effector genes. ''Front Plant Sci''. 2014; '''5''': 759
Conserved microsatellites in ants enable population genetic and colony pedigree studies across a wide range of species. Description: Butler, Ian A, et al. Conserved microsatellites in ants enable population genetic and colony pedigree studies across a wide range of species. ''PLoS One''. 2014; '''9''' (9):e107334
Context-driven activation of odor representations in the absence of olfactory stimuli in the olfactory bulb and piriform cortex. Description: Mandairon, Nathalie, et al. Context-driven activation of odor representations in the absence of olfactory stimuli in the olfactory bulb and piriform cortex. ''Front Behav Neurosci''. 2014; '''8''': 138
Data-driven analysis of simultaneous EEG/fMRI using an ICA approach. Description: Schmuser, Lena, et al. Data-driven analysis of simultaneous EEG/fMRI using an ICA approach. ''Front Neurosci''. 2014; '''8''': 175
Detecting falls as novelties in acceleration patterns acquired with smartphones. Description: Medrano, Carlos, et al. Detecting falls as novelties in acceleration patterns acquired with smartphones. ''PLoS One''. 2014; '''9''' (4):e94811
Diffusion approximation-based simulation of stochastic ion channels: which method to use? Description: Pezo, Danilo, et al. Diffusion approximation-based simulation of stochastic ion channels: which method to use? ''Front Comput Neurosci''. 2014; '''8''': 139
Diversifying selection in the wheat stem rust fungus acts predominantly on pathogen-associated gene families and reveals candidate effectors. Description: Sperschneider, Jana, et al. Diversifying selection in the wheat stem rust fungus acts predominantly on pathogen-associated gene families and reveals candidate effectors. ''Front Plant Sci''. 2014; '''5''': 372
Drug-drug interaction data source survey and linking. Description: Ayvaz, Serkan, et al. Drug-drug interaction data source survey and linking. ''AMIA Jt Summits Transl Sci Proc''. 2014; '''2014''': 16
Environmental conditions around itineraries to destinations as correlates of walking for transportation among adults: the RECORD cohort study. Description: Karusisi, Noella, et al. Environmental conditions around itineraries to destinations as correlates of walking for transportation among adults: the RECORD cohort study. ''PLoS One''. 2014; '''9''' (5):e88929
Evolutionary strategies of viruses, bacteria and archaea in hydrothermal vent ecosystems revealed through metagenomics. Description: Anderson, Rika E, et al. Evolutionary strategies of viruses, bacteria and archaea in hydrothermal vent ecosystems revealed through metagenomics. ''PLoS One''. 2014; '''9''' (10):e109696
Full genome virus detection in fecal samples using sensitive nucleic acid preparation, deep sequencing, and a novel iterative sequence classification algorithm. Description: Cotten, Matthew, et al. Full genome virus detection in fecal samples using sensitive nucleic acid preparation, deep sequencing, and a novel iterative sequence classification algorithm. ''PLoS One''. 2014; '''9''' (4):e93269
Genome-wide DNA methylation patterns and transcription analysis in sheep muscle. Description: Couldrey, Christine, et al. Genome-wide DNA methylation patterns and transcription analysis in sheep muscle. ''PLoS One''. 2014; '''9''' (7):e101853
Genotyping-by-sequencing for Populus population genomics: an assessment of genome sampling patterns and filtering approaches. Description: Schilling, Martin P, et al. Genotyping-by-sequencing for Populus population genomics: an assessment of genome sampling patterns and filtering approaches. ''PLoS One''. 2014; '''9''' (4):e95292
High-throughput targeted repeat element bisulfite sequencing (HT-TREBS): genome-wide DNA methylation analysis of IAP LTR retrotransposon. Description: Ekram, Muhammad B, et al. High-throughput targeted repeat element bisulfite sequencing (HT-TREBS): genome-wide DNA methylation analysis of IAP LTR retrotransposon. ''PLoS One''. 2014; '''9''' (7):e101683
HIV-1 quasispecies delineation by tag linkage deep sequencing. Description: Wu, Nicholas C, et al. HIV-1 quasispecies delineation by tag linkage deep sequencing. ''PLoS One''. 2014; '''9''' (5):e97505
HTSstation: a web application and open-access libraries for high-throughput sequencing data analysis. Description: David, Fabrice P A, et al. HTSstation: a web application and open-access libraries for high-throughput sequencing data analysis. ''PLoS One''. 2014; '''9''' (1):e85879
Identification of potential herbal inhibitor of acetylcholinesterase associated Alzheimer's disorders using molecular docking and molecular dynamics simulation. Description: Seniya, Chandrabhan, et al. Identification of potential herbal inhibitor of acetylcholinesterase associated Alzheimer's disorders using molecular docking and molecular dynamics simulation. ''Biochem Res Int''. 2014; '''2014''': 705451
Identifying microRNAs and transcript targets in Jatropha seeds. Description: Galli, Vanessa, et al. Identifying microRNAs and transcript targets in Jatropha seeds. ''PLoS One''. 2014; '''9''' (2):e83727
Impacts of multiwalled carbon nanotubes on nutrient removal from wastewater and bacterial community structure in activated sludge. Description: Hai, Reti, et al. Impacts of multiwalled carbon nanotubes on nutrient removal from wastewater and bacterial community structure in activated sludge. ''PLoS One''. 2014; '''9''' (9):e107345
In Silico target fishing: addressing a "Big Data" problem by ligand-based similarity rankings with data fusion. Description: Liu, Xian, et al. In Silico target fishing: addressing a "Big Data" problem by ligand-based similarity rankings with data fusion. ''J Cheminform''. 2014; '''6''': 33
Interleukin-6 secretion by astrocytes is dynamically regulated by PI3K-mTOR-calcium signaling. Description: Codeluppi, Simone, et al. Interleukin-6 secretion by astrocytes is dynamically regulated by PI3K-mTOR-calcium signaling. ''PLoS One''. 2014; '''9''' (3):e92649
Large-scale structure of a network of co-occurring MeSH terms: statistical analysis of macroscopic properties. Description: Kastrin, Andrej, et al. Large-scale structure of a network of co-occurring MeSH terms: statistical analysis of macroscopic properties. ''PLoS One''. 2014; '''9''' (7):e102188
Links between belowground and aboveground resource-related traits reveal species growth strategies that promote invasive advantages. Description: Smith, Maria S, et al. Links between belowground and aboveground resource-related traits reveal species growth strategies that promote invasive advantages. ''PLoS One''. 2014; '''9''' (8):e104189
Nested insertions and accumulation of indels are negatively correlated with abundance of mutator-like transposable elements in maize and rice. Description: Zhao, Dongyan, et al. Nested insertions and accumulation of indels are negatively correlated with abundance of mutator-like transposable elements in maize and rice. ''PLoS One''. 2014; '''9''' (1):e87069
On growth and form of irregular coiled-shell of a terrestrial snail: Plectostoma concinnum (Fulton, 1901) (Mollusca: Caenogastropoda: Diplommatinidae). Description: Liew, Thor-Seng, et al. On growth and form of irregular coiled-shell of a terrestrial snail: Plectostoma concinnum (Fulton, 1901) (Mollusca: Caenogastropoda: Diplommatinidae). ''PeerJ''. 2014; '''2''': e383
Oscillatory behavior of neutrophils under opposing chemoattractant gradients supports a winner-take-all mechanism. Description: Byrne, Matthew B, et al. Oscillatory behavior of neutrophils under opposing chemoattractant gradients supports a winner-take-all mechanism. ''PLoS One''. 2014; '''9''' (1):e85726
Parametric Anatomical Modeling: a method for modeling the anatomical layout of neurons and their projections. Description: Pyka, Martin, et al. Parametric Anatomical Modeling: a method for modeling the anatomical layout of neurons and their projections. ''Front Neuroanat''. 2014; '''8''': 91
Patterns of genomic variation in the poplar rust fungus Melampsora larici-populina identify pathogenesis-related factors. Description: Persoons, Antoine, et al. Patterns of genomic variation in the poplar rust fungus Melampsora larici-populina identify pathogenesis-related factors. ''Front Plant Sci''. 2014; '''5''': 450
Predicted deep-sea coral habitat suitability for the U.S. West coast. Description: Guinotte, John M, et al. Predicted deep-sea coral habitat suitability for the U.S. West coast. ''PLoS One''. 2014; '''9''' (4):e93918
Purifying selection in deeply conserved human enhancers is more consistent than in coding sequences. Description: De Silva, Dilrini R, et al. Purifying selection in deeply conserved human enhancers is more consistent than in coding sequences. ''PLoS One''. 2014; '''9''' (7):e103357
Rising tides or rising stars?: Dynamics of shared attention on Twitter during media events. Description: Lin, Yu-Ru, et al. Rising tides or rising stars?: Dynamics of shared attention on Twitter during media events. ''PLoS One''. 2014; '''9''' (5):e94093
Semi-automated literature mining to identify putative biomarkers of disease from multiple biofluids. Description: Jordan, Rick, et al. Semi-automated literature mining to identify putative biomarkers of disease from multiple biofluids. ''J Clin Bioinforma''. 2014; '''4''': 13
Sniff adjustment in an odor discrimination task in the rat: analytical or synthetic strategy? Description: Courtiol, Emmanuelle, et al. Sniff adjustment in an odor discrimination task in the rat: analytical or synthetic strategy? ''Front Behav Neurosci''. 2014; '''8''': 145
Software and hardware infrastructure for research in electrophysiology. Description: Moucek, Roman, et al. Software and hardware infrastructure for research in electrophysiology. ''Front Neuroinform''. 2014; '''8''': 20
Specific gene expression responses to parasite genotypes reveal redundancy of innate immunity in vertebrates. Description: Haase, David, et al. Specific gene expression responses to parasite genotypes reveal redundancy of innate immunity in vertebrates. ''PLoS One''. 2014; '''9''' (9):e108001
Statistical analysis of crystallization database links protein physico-chemical features with crystallization mechanisms. Description: Fusco, Diana, et al. Statistical analysis of crystallization database links protein physico-chemical features with crystallization mechanisms. ''PLoS One''. 2014; '''9''' (7):e101123
Structural insights into the evolution of a sexy protein: novel topology and restricted backbone flexibility in a hypervariable pheromone from the red-legged salamander, Plethodon shermani. Description: Wilburn, Damien B, et al. Structural insights into the evolution of a sexy protein: novel topology and restricted backbone flexibility in a hypervariable pheromone from the red-legged salamander, Plethodon shermani. ''PLoS One''. 2014; '''9''' (5):e96975
The complexity of vesicle transport factors in plants examined by orthology search. Description: Paul, Puneet, et al. The complexity of vesicle transport factors in plants examined by orthology search. ''PLoS One''. 2014; '''9''' (5):e97745
The potential utility of predicted one bond carbon-proton coupling constants in the structure elucidation of small organic molecules by NMR spectroscopy. Description: Venkata, Chandrasekhar, et al. The potential utility of predicted one bond carbon-proton coupling constants in the structure elucidation of small organic molecules by NMR spectroscopy. ''PLoS One''. 2014; '''9''' (11):e111576
The SPF27 homologue Num1 connects splicing and kinesin 1-dependent cytoplasmic trafficking in Ustilago maydis. Description: Kellner, Nikola, et al. The SPF27 homologue Num1 connects splicing and kinesin 1-dependent cytoplasmic trafficking in Ustilago maydis. ''PLoS Genet''. 2014 Jan; '''10''' (1):e1004046
WXG100 protein superfamily consists of three subfamilies and exhibits an alpha-helical C-terminal conserved residue pattern. Description: Poulsen, Christian, et al. WXG100 protein superfamily consists of three subfamilies and exhibits an alpha-helical C-terminal conserved residue pattern. ''PLoS One''. 2014; '''9''' (2):e89313
Diet rapidly and reproducibly alters the human gut microbiome. Description: David, Lawrence A, et al. Diet rapidly and reproducibly alters the human gut microbiome. ''Nature''. 2014 Jan 23; '''505''' (7484):559-63
Non-synonymous variations in cancer and their effects on the human proteome: workflow for NGS data biocuration and proteome-wide analysis of TCGA data. Description: Cole, Charles, et al. Non-synonymous variations in cancer and their effects on the human proteome: workflow for NGS data biocuration and proteome-wide analysis of TCGA data. ''BMC Bioinformatics''. 2014 Jan 27; '''15''': 28
Production of a reference transcriptome and transcriptomic database (EdwardsiellaBase) for the lined sea anemone, Edwardsiella lineata, a parasitic cnidarian. Description: Stefanik, Derek J, et al. Production of a reference transcriptome and transcriptomic database (EdwardsiellaBase) for the lined sea anemone, Edwardsiella lineata, a parasitic cnidarian. ''BMC Genomics''. 2014 Jan 28; '''15''': 71
Deep sequencing of large library selections allows computational discovery of diverse sets of zinc fingers that bind common targets. Description: Persikov, Anton V, et al. Deep sequencing of large library selections allows computational discovery of diverse sets of zinc fingers that bind common targets. ''Nucleic Acids Res''. 2014 Feb; '''42''' (3):1497-508
Nucleotide variability at its limit? Insights into the number and evolutionary dynamics of the sex-determining specificities of the honey bee Apis mellifera. Description: Lechner, Sarah, et al. Nucleotide variability at its limit? Insights into the number and evolutionary dynamics of the sex-determining specificities of the honey bee Apis mellifera. ''Mol Biol Evol''. 2014 Feb; '''31''' (2):272-87
Comparison of brush and biopsy sampling methods of the ileal pouch for assessment of mucosa-associated microbiota of human subjects. Description: Huse, Susan M, et al. Comparison of brush and biopsy sampling methods of the ileal pouch for assessment of mucosa-associated microbiota of human subjects. ''Microbiome''. 2014 Feb 14; '''2''' (1):5
Spread, circulation, and evolution of the Middle East respiratory syndrome coronavirus. Description: Cotten, Matthew, et al. Spread, circulation, and evolution of the Middle East respiratory syndrome coronavirus. ''mBio''. 2014 Feb 18; '''5''' (1):
The environmental correlates of overall and neighborhood based recreational walking (a cross-sectional analysis of the RECORD Study). Description: Chaix, Basile, et al. The environmental correlates of overall and neighborhood based recreational walking (a cross-sectional analysis of the RECORD Study). ''Int J Behav Nutr Phys Act''. 2014 Feb 21; '''11''' (1):20
GC-rich DNA elements enable replication origin activity in the methylotrophic yeast Pichia pastoris. Description: Liachko, Ivan, et al. GC-rich DNA elements enable replication origin activity in the methylotrophic yeast Pichia pastoris. ''PLoS Genet''. 2014 Mar; '''10''' (3):e1004169
Unique features of the loblolly pine (Pinus taeda L.) megagenome revealed through sequence annotation. Description: Wegrzyn, Jill L, et al. Unique features of the loblolly pine (Pinus taeda L.) megagenome revealed through sequence annotation. ''Genetics''. 2014 Mar; '''196''' (3):891-909
From root to fruit: RNA-Seq analysis shows that arbuscular mycorrhizal symbiosis may affect tomato fruit metabolism. Description: Zouari, Ines, et al. From root to fruit: RNA-Seq analysis shows that arbuscular mycorrhizal symbiosis may affect tomato fruit metabolism. ''BMC Genomics''. 2014 Mar 21; '''15''': 221
Genomics of CpG methylation in developing and developed zebrafish. Description: McGaughey, David M, et al. Genomics of CpG methylation in developing and developed zebrafish. ''G3 (Bethesda)''. 2014 Mar 21; '''4''' (5):861-9
Inference of chromosomal inversion dynamics from Pool-Seq data in natural and laboratory populations of Drosophila melanogaster. Description: Kapun, Martin, et al. Inference of chromosomal inversion dynamics from Pool-Seq data in natural and laboratory populations of Drosophila melanogaster. ''Mol Ecol''. 2014 Apr; '''23''' (7):1813-27
Building a phylogenomic pipeline for the eukaryotic tree of life - addressing deep phylogenies with genome-scale data. Description: Grant, Jessica R, et al. Building a phylogenomic pipeline for the eukaryotic tree of life - addressing deep phylogenies with genome-scale data. ''PLoS Curr''. 2014 Apr 2; '''6''':
Zearalenone lactonohydrolase activity in Hypocreales and its evolutionary relationships within the epoxide hydrolase subset of a/b-hydrolases. Description: Popiel, Delfina, et al. Zearalenone lactonohydrolase activity in Hypocreales and its evolutionary relationships within the epoxide hydrolase subset of a/b-hydrolases. ''BMC Microbiol''. 2014 Apr 3; '''14''': 82
A comprehensive study of small non-frameshift insertions/deletions in proteins and prediction of their phenotypic effects by a machine learning method (KD4i). Description: Bermejo-Das-Neves, Carlos, et al. A comprehensive study of small non-frameshift insertions/deletions in proteins and prediction of their phenotypic effects by a machine learning method (KD4i). ''BMC Bioinformatics''. 2014 Apr 17; '''15''': 111
EgoNet: identification of human disease ego-network modules. Description: Yang, Rendong, et al. EgoNet: identification of human disease ego-network modules. ''BMC Genomics''. 2014 Apr 28; '''15''': 314
Next-generation sequencing to dissect hereditary nephrotic syndrome in mice identifies a hypomorphic mutation in Lamb2 and models Pierson's syndrome. Description: Bull, Katherine R, et al. Next-generation sequencing to dissect hereditary nephrotic syndrome in mice identifies a hypomorphic mutation in Lamb2 and models Pierson's syndrome. ''J Pathol''. 2014 May; '''233''' (1):18-26
Using Global Positioning Systems (GPS) and temperature data to generate time-activity classifications for estimating personal exposure in air monitoring studies: an automated method. Description: Nethery, Elizabeth, et al. Using Global Positioning Systems (GPS) and temperature data to generate time-activity classifications for estimating personal exposure in air monitoring studies: an automated method. ''Environ Health''. 2014 May 8; '''13''' (1):33
Sequence artefacts in a prospective series of formalin-fixed tumours tested for mutations in hotspot regions by massively parallel sequencing. Description: Wong, Stephen Q, et al. Sequence artefacts in a prospective series of formalin-fixed tumours tested for mutations in hotspot regions by massively parallel sequencing. ''BMC Med Genomics''. 2014 May 13; '''7''': 23
Identification of G protein-coupled receptors in Schistosoma haematobium and S. mansoni by comparative genomics. Description: Campos, Tulio D L, et al. Identification of G protein-coupled receptors in Schistosoma haematobium and S. mansoni by comparative genomics. ''Parasit Vectors''. 2014 May 27; '''7''': 242
Molecular diagnostics on the toxigenic potential of Fusarium spp. plant pathogens. Description: Dawidziuk, A, et al. Molecular diagnostics on the toxigenic potential of Fusarium spp. plant pathogens. ''J Appl Microbiol''. 2014 Jun; '''116''' (6):1607-20
The calcium-dependent protein kinase 3 of toxoplasma influences basal calcium levels and functions beyond egress as revealed by quantitative phosphoproteome analysis. Description: Treeck, Moritz, et al. The calcium-dependent protein kinase 3 of toxoplasma influences basal calcium levels and functions beyond egress as revealed by quantitative phosphoproteome analysis. ''PLoS Pathog''. 2014 Jun; '''10''' (6):e1004197
Fully automated high-throughput chromatin immunoprecipitation for ChIP-seq: identifying ChIP-quality p300 monoclonal antibodies. Description: Gasper, William C, et al. Fully automated high-throughput chromatin immunoprecipitation for ChIP-seq: identifying ChIP-quality p300 monoclonal antibodies. ''Sci Rep''. 2014 Jun 12; '''4''': 5152
Transposable element dynamics among asymbiotic and ectomycorrhizal Amanita fungi. Description: Hess, Jaqueline, et al. Transposable element dynamics among asymbiotic and ectomycorrhizal Amanita fungi. ''Genome Biol Evol''. 2014 Jun 12; '''6''' (7):1564-78
Pipasic: similarity and expression correction for strain-level identification and quantification in metaproteomics. Description: Penzlin, Anke, et al. Pipasic: similarity and expression correction for strain-level identification and quantification in metaproteomics. ''Bioinformatics''. 2014 Jun 15; '''30''' (12):i149-56
Importance of the RNA secondary structure for the relative accumulation of clustered viral microRNAs. Description: Contrant, Maud, et al. Importance of the RNA secondary structure for the relative accumulation of clustered viral microRNAs. ''Nucleic Acids Res''. 2014 Jul; '''42''' (12):7981-96
Theoretical and experimental assessment of degenerate primer tagging in ultra-deep applications of next-generation sequencing. Description: Liang, Richard H, et al. Theoretical and experimental assessment of degenerate primer tagging in ultra-deep applications of next-generation sequencing. ''Nucleic Acids Res''. 2014 Jul; '''42''' (12):e98
Reliable reconstruction of HIV-1 whole genome haplotypes reveals clonal interference and genetic hitchhiking among immune escape variants. Description: Pandit, Aridaman, et al. Reliable reconstruction of HIV-1 whole genome haplotypes reveals clonal interference and genetic hitchhiking among immune escape variants. ''Retrovirology''. 2014 Jul 4; '''11''': 56
Transcriptome-wide analysis of microRNA expression in the malaria mosquito Anopheles gambiae. Description: Biryukova, Inna, et al. Transcriptome-wide analysis of microRNA expression in the malaria mosquito Anopheles gambiae. ''BMC Genomics''. 2014 Jul 4; '''15''': 557
Improved Reweighting of Accelerated Molecular Dynamics Simulations for Free Energy Calculation. Description: Miao, Yinglong, et al. Improved Reweighting of Accelerated Molecular Dynamics Simulations for Free Energy Calculation. ''J Chem Theory Comput''. 2014 Jul 8; '''10''' (7):2677-2689
Fast and cost-effective genetic mapping in apple using next-generation sequencing. Description: Gardner, Kyle M, et al. Fast and cost-effective genetic mapping in apple using next-generation sequencing. ''G3 (Bethesda)''. 2014 Jul 16; '''4''' (9):1681-7
Genome-wide analysis of genetic and epigenetic control of programmed DNA deletion. Description: Swart, Estienne C, et al. Genome-wide analysis of genetic and epigenetic control of programmed DNA deletion. ''Nucleic Acids Res''. 2014 Aug; '''42''' (14):8970-83
KDM6 demethylase independent loss of histone H3 lysine 27 trimethylation during early embryonic development. Description: Shpargel, Karl B, et al. KDM6 demethylase independent loss of histone H3 lysine 27 trimethylation during early embryonic development. ''PLoS Genet''. 2014 Aug; '''10''' (8):e1004507
Nitric oxide from IFNgamma-primed macrophages modulates the antimicrobial activity of beta-lactams against the intracellular pathogens Burkholderia pseudomallei and Nontyphoidal Salmonella. Description: Jones-Carson, Jessica, et al. Nitric oxide from IFNgamma-primed macrophages modulates the antimicrobial activity of beta-lactams against the intracellular pathogens Burkholderia pseudomallei and Nontyphoidal Salmonella. ''PLoS Negl Trop Dis''. 2014 Aug; '''8''' (8):e3079
Characterization of newly gained introns in Daphnia populations. Description: Li, Wenli, et al. Characterization of newly gained introns in Daphnia populations. ''Genome Biol Evol''. 2014 Aug 14; '''6''' (9):2218-34
Genomic signatures of distributive conjugal transfer among mycobacteria. Description: Mortimer, Tatum D, et al. Genomic signatures of distributive conjugal transfer among mycobacteria. ''Genome Biol Evol''. 2014 Aug 30; '''6''' (9):2489-500
Communication routes in ARID domains between distal residues in helix 5 and the DNA-binding loops. Description: Invernizzi, Gaetano, et al. Communication routes in ARID domains between distal residues in helix 5 and the DNA-binding loops. ''PLoS Comput Biol''. 2014 Sep; '''10''' (9):e1003744
Detecting concerted demographic response across community assemblages using hierarchical approximate Bayesian computation. Description: Chan, Yvonne L, et al. Detecting concerted demographic response across community assemblages using hierarchical approximate Bayesian computation. ''Mol Biol Evol''. 2014 Sep; '''31''' (9):2501-15
Do the same genes underlie parallel phenotypic divergence in different Littorina saxatilis populations? Description: Westram, A M, et al. Do the same genes underlie parallel phenotypic divergence in different Littorina saxatilis populations? ''Mol Ecol''. 2014 Sep; '''23''' (18):4603-16
Interspecific tests of allelism reveal the evolutionary timing and pattern of accumulation of reproductive isolation mutations. Description: Sherman, Natasha A, et al. Interspecific tests of allelism reveal the evolutionary timing and pattern of accumulation of reproductive isolation mutations. ''PLoS Genet''. 2014 Sep; '''10''' (9):e1004623
Deletions of chromosomal regulatory boundaries are associated with congenital disease. Description: Ibn-Salem, Jonas, et al. Deletions of chromosomal regulatory boundaries are associated with congenital disease. ''Genome Biol''. 2014 Sep 4; '''15''' (9):423
Discovery of a small molecule that inhibits bacterial ribosome biogenesis. Description: Stokes, Jonathan M, et al. Discovery of a small molecule that inhibits bacterial ribosome biogenesis. ''Elife''. 2014 Sep 18; '''3''': e03574
Differential genome evolution between companion symbionts in an insect-bacterial symbiosis. Description: Bennett, Gordon M, et al. Differential genome evolution between companion symbionts in an insect-bacterial symbiosis. ''mBio''. 2014 Sep 30; '''5''' (5):e01697-14
Comprehensive mapping of the Escherichia coli flagellar regulatory network. Description: Fitzgerald, Devon M, et al. Comprehensive mapping of the Escherichia coli flagellar regulatory network. ''PLoS Genet''. 2014 Oct; '''10''' (10):e1004649
Deep sequencing of norovirus genomes defines evolutionary patterns in an urban tropical setting. Description: Cotten, Matthew, et al. Deep sequencing of norovirus genomes defines evolutionary patterns in an urban tropical setting. ''J Virol''. 2014 Oct; '''88''' (19):11056-69
Functional interaction between ribosomal protein L6 and RbgA during ribosome assembly. Description: Gulati, Megha, et al. Functional interaction between ribosomal protein L6 and RbgA during ribosome assembly. ''PLoS Genet''. 2014 Oct; '''10''' (10):e1004694
New insights into domestication of carrot from root transcriptome analyses. Description: Rong, Jun, et al. New insights into domestication of carrot from root transcriptome analyses. ''BMC Genomics''. 2014 Oct 14; '''15''': 895
Faster-X effects in two Drosophila lineages. Description: Avila, Victoria, et al. Faster-X effects in two Drosophila lineages. ''Genome Biol Evol''. 2014 Oct 15; '''6''' (10):2968-82
Evidence for stabilizing selection on codon usage in chromosomal rearrangements of Drosophila pseudoobscura. Description: Fuller, Zachary L, et al. Evidence for stabilizing selection on codon usage in chromosomal rearrangements of Drosophila pseudoobscura. ''G3 (Bethesda)''. 2014 Oct 17; '''4''' (12):2433-49
Improving the accuracy of expression data analysis in time course experiments using resampling. Description: Walter, Wencke, et al. Improving the accuracy of expression data analysis in time course experiments using resampling. ''BMC Bioinformatics''. 2014 Oct 25; '''15''': 352
Prevalence, evolution, and cis-regulation of diel transcription in Chlamydomonas reinhardtii. Description: Panchy, Nicholas, et al. Prevalence, evolution, and cis-regulation of diel transcription in Chlamydomonas reinhardtii. ''G3 (Bethesda)''. 2014 Oct 28; '''4''' (12):2461-71
Accumulation of human-adapting mutations during circulation of A(H1N1)pdm09 influenza virus in humans in the United Kingdom. Description: Elderfield, Ruth A, et al. Accumulation of human-adapting mutations during circulation of A(H1N1)pdm09 influenza virus in humans in the United Kingdom. ''J Virol''. 2014 Nov; '''88''' (22):13269-83
DeMix workflow for efficient identification of cofragmented peptides in high resolution data-dependent tandem mass spectrometry. Description: Zhang, Bo, et al. DeMix workflow for efficient identification of cofragmented peptides in high resolution data-dependent tandem mass spectrometry. ''Mol Cell Proteomics''. 2014 Nov; '''13''' (11):3211-23
Positive selection during the evolution of the blood coagulation factors in the context of their disease-causing mutations. Description: Rallapalli, Pavithra M, et al. Positive selection during the evolution of the blood coagulation factors in the context of their disease-causing mutations. ''Mol Biol Evol''. 2014 Nov; '''31''' (11):3040-56
Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells. Description: Carlile, Thomas M, et al. Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells. ''Nature''. 2014 Nov 6; '''515''' (7525):143-6
Chromosome conformation maps in fission yeast reveal cell cycle dependent sub nuclear structure. Description: Grand, Ralph S, et al. Chromosome conformation maps in fission yeast reveal cell cycle dependent sub nuclear structure. ''Nucleic Acids Res''. 2014 Nov 10; '''42''' (20):12585-99
Dissecting the human protein-protein interaction network via phylogenetic decomposition. Description: Chen, Cho-Yi, et al. Dissecting the human protein-protein interaction network via phylogenetic decomposition. ''Sci Rep''. 2014 Nov 21; '''4''': 7153
On the Contribution of Protein Spatial Organization to the Physicochemical Interconnection between Proteins and Their Cognate mRNAs. Description: Beier, Andreas, et al. On the Contribution of Protein Spatial Organization to the Physicochemical Interconnection between Proteins and Their Cognate mRNAs. ''Life (Basel)''. 2014 Nov 21; '''4''' (4):788-99
Whole genome sequencing and methylome analysis of the wild guinea pig. Description: Weyrich, Alexandra, et al. Whole genome sequencing and methylome analysis of the wild guinea pig. ''BMC Genomics''. 2014 Nov 28; '''15''': 1036
Foxk proteins repress the initiation of starvation-induced atrophy and autophagy programs. Description: Bowman, Christopher John, et al. Foxk proteins repress the initiation of starvation-induced atrophy and autophagy programs. ''Nat Cell Biol''. 2014 Dec; '''16''' (12):1202-14
IMA Genome-F 3: Draft genomes of Amanita jacksonii, Ceratocystis albifundus, Fusarium circinatum, Huntiella omanensis, Leptographium procerum, Rutstroemia sydowiana, and Sclerotinia echinophila. Description: van der Nest, Magriet A, et al. IMA Genome-F 3: Draft genomes of Amanita jacksonii, Ceratocystis albifundus, Fusarium circinatum, Huntiella omanensis, Leptographium procerum, Rutstroemia sydowiana, and Sclerotinia echinophila. ''IMA Fungus''. 2014 Dec; '''5''' (2):473-86
Sampling strategies for frequency spectrum-based population genomic inference. Description: Robinson, John D, et al. Sampling strategies for frequency spectrum-based population genomic inference. ''BMC Evol Biol''. 2014 Dec 4; '''14''': 254
Highly expressed captured genes and cross-kingdom domains present in Helitrons create novel diversity in Pleurotus ostreatus and other fungi. Description: Castanera, Raul, et al. Highly expressed captured genes and cross-kingdom domains present in Helitrons create novel diversity in Pleurotus ostreatus and other fungi. ''BMC Genomics''. 2014 Dec 5; '''15''': 1071
Genomic resources for the endangered Hawaiian honeycreepers. Description: Callicrate, Taylor, et al. Genomic resources for the endangered Hawaiian honeycreepers. ''BMC Genomics''. 2014 Dec 12; '''15''': 1098
Identification of tri-phosphatase activity in the biogenesis of retroviral microRNAs and RNAP III-generated shRNAs. Description: Burke, James M, et al. Identification of tri-phosphatase activity in the biogenesis of retroviral microRNAs and RNAP III-generated shRNAs. ''Nucleic Acids Res''. 2014 Dec 16; '''42''' (22):13949-62
Identification of Wolbachia-responsive microRNAs in the two-spotted spider mite, Tetranychus urticae. Description: Rong, Xia, et al. Identification of Wolbachia-responsive microRNAs in the two-spotted spider mite, Tetranychus urticae. ''BMC Genomics''. 2014 Dec 16; '''15''': 1122
Transcription factor MrpC binds to promoter regions of hundreds of developmentally-regulated genes in Myxococcus xanthus. Description: Robinson, Mark, et al. Transcription factor MrpC binds to promoter regions of hundreds of developmentally-regulated genes in Myxococcus xanthus. ''BMC Genomics''. 2014 Dec 16; '''15''': 1123
Biochemical evaluation of virtual screening methods reveals a cell-active inhibitor of the cancer-promoting phosphatases of regenerating liver. Description: Hoeger, Birgit, et al. Biochemical evaluation of virtual screening methods reveals a cell-active inhibitor of the cancer-promoting phosphatases of regenerating liver. ''Eur J Med Chem''. 2014 Dec 17; '''88''': 89-100
Mechanical design principles of a mitotic spindle. Description: Ward, Jonathan J, et al. Mechanical design principles of a mitotic spindle. ''Elife''. 2014 Dec 18; '''3''': e03398
High-throughput profiling of point mutations across the HIV-1 genome. Description: Al-Mawsawi, Laith Q, et al. High-throughput profiling of point mutations across the HIV-1 genome. ''Retrovirology''. 2014 Dec 19; '''11''': 124
Identifying tandem Ankyrin repeats in protein structures. Description: Chakrabarty, Broto, et al. Identifying tandem Ankyrin repeats in protein structures. ''BMC Bioinformatics''. 2014 Dec 30; '''15''': 6599
A comparative study of SVDquartets and other coalescent-based species tree estimation methods. Description: Chou, Jed, et al. A comparative study of SVDquartets and other coalescent-based species tree estimation methods. ''BMC Genomics''. 2015; '''16 Suppl 10''': S2
Activation of an endogenous retrovirus-associated long non-coding RNA in human adenocarcinoma. Description: Gibb, Ewan A, et al. Activation of an endogenous retrovirus-associated long non-coding RNA in human adenocarcinoma. ''Genome Med''. 2015; '''7''' (1):22
A fast topological analysis algorithm for large-scale similarity evaluations of ligands and binding pockets. Description: ElGamacy, Mohammad, et al. A fast topological analysis algorithm for large-scale similarity evaluations of ligands and binding pockets. ''J Cheminform''. 2015; '''7''': 42
A Metagenomic Investigation of the Duodenal Microbiota Reveals Links with Obesity. Description: Angelakis, Emmanouil, et al. A Metagenomic Investigation of the Duodenal Microbiota Reveals Links with Obesity. ''PLoS One''. 2015; '''10''' (9):e0137784
Analysis of Biobanked Serum from a Mycobacterium avium subsp paratuberculosis Bovine Infection Model Confirms the Remarkable Stability of Circulating miRNA Profiles and Defines a Bovine Serum miRNA Repertoire. Description: Shaughnessy, Ronan G, et al. Analysis of Biobanked Serum from a Mycobacterium avium subsp paratuberculosis Bovine Infection Model Confirms the Remarkable Stability of Circulating miRNA Profiles and Defines a Bovine Serum miRNA Repertoire. ''PLoS One''. 2015; '''10''' (12):e0145089
An assessment of heavy ion irradiation mutagenesis for reverse genetics in wheat (Triticum aestivum L.). Description: Fitzgerald, Timothy L, et al. An assessment of heavy ion irradiation mutagenesis for reverse genetics in wheat (Triticum aestivum L.). ''PLoS One''. 2015; '''10''' (2):e0117369
A next generation semiconductor based sequencing approach for the identification of meat species in DNA mixtures. Description: Bertolini, Francesca, et al. A next generation semiconductor based sequencing approach for the identification of meat species in DNA mixtures. ''PLoS One''. 2015; '''10''' (4):e0121701
A novel mathematical model describing adaptive cellular drug metabolism and toxicity in the chemoimmune system. Description: Toth, Attila, et al. A novel mathematical model describing adaptive cellular drug metabolism and toxicity in the chemoimmune system. ''PLoS One''. 2015; '''10''' (2):e0115533
ARG-walker: inference of individual specific strengths of meiotic recombination hotspots by population genomics analysis. Description: Chen, Hao, et al. ARG-walker: inference of individual specific strengths of meiotic recombination hotspots by population genomics analysis. ''BMC Genomics''. 2015; '''16 Suppl 12''': S1
Automated Defect and Correlation Length Analysis of Block Copolymer Thin Film Nanopatterns. Description: Murphy, Jeffrey N, et al. Automated Defect and Correlation Length Analysis of Block Copolymer Thin Film Nanopatterns. ''PLoS One''. 2015; '''10''' (7):e0133088
Automatic sleep spindle detection: benchmarking with fine temporal resolution using open science tools. Description: O'Reilly, Christian, et al. Automatic sleep spindle detection: benchmarking with fine temporal resolution using open science tools. ''Front Hum Neurosci''. 2015; '''9''': 353
Baseline Assessment of Mesophotic Reefs of the Vitoria-Trindade Seamount Chain Based on Water Quality, Microbial Diversity, Benthic Cover and Fish Biomass Data. Description: Meirelles, Pedro M, et al. Baseline Assessment of Mesophotic Reefs of the Vitoria-Trindade Seamount Chain Based on Water Quality, Microbial Diversity, Benthic Cover and Fish Biomass Data. ''PLoS One''. 2015; '''10''' (6):e0130084
Bulbar microcircuit model predicts connectivity and roles of interneurons in odor coding. Description: Gilra, Aditya, et al. Bulbar microcircuit model predicts connectivity and roles of interneurons in odor coding. ''PLoS One''. 2015; '''10''' (5):e0098045
Challenges with using primer IDs to improve accuracy of next generation sequencing. Description: Brodin, Johanna, et al. Challenges with using primer IDs to improve accuracy of next generation sequencing. ''PLoS One''. 2015; '''10''' (3):e0119123
Characterization of a next-generation piezo bimorph X-ray mirror for synchrotron beamlines. Description: Alcock, Simon G, et al. Characterization of a next-generation piezo bimorph X-ray mirror for synchrotron beamlines. ''J Synchrotron Radiat''. 2015 Jan; '''22''' (1):10-5
Colonization of plant substrates at hydrothermal vents and cold seeps in the northeast Atlantic and Mediterranean and occurrence of symbiont-related bacteria. Description: Szafranski, Kamil M, et al. Colonization of plant substrates at hydrothermal vents and cold seeps in the northeast Atlantic and Mediterranean and occurrence of symbiont-related bacteria. ''Front Microbiol''. 2015; '''6''': 162
Computational reconstitution of spine calcium transients from individual proteins. Description: Bartol, Thomas M, et al. Computational reconstitution of spine calcium transients from individual proteins. ''Front Synaptic Neurosci''. 2015; '''7''': 17
CRISPR multitargeter: a web tool to find common and unique CRISPR single guide RNA targets in a set of similar sequences. Description: Prykhozhij, Sergey V, et al. CRISPR multitargeter: a web tool to find common and unique CRISPR single guide RNA targets in a set of similar sequences. ''PLoS One''. 2015; '''10''' (3):e0119372
Diagnostics for a troubled backbone: testing topological hypotheses of trapelioid lichenized fungi in a large-scale phylogeny of Ostropomycetidae (Lecanoromycetes). Description: Resl, Philipp, et al. Diagnostics for a troubled backbone: testing topological hypotheses of trapelioid lichenized fungi in a large-scale phylogeny of Ostropomycetidae (Lecanoromycetes). ''Fungal Divers''. 2015; '''73''' (1):239-258
Differential assemblage of functional units in paddy soil microbiomes. Description: Kim, Yongkyu, et al. Differential assemblage of functional units in paddy soil microbiomes. ''PLoS One''. 2015; '''10''' (4):e0122221
Distributed Bayesian Computation and Self-Organized Learning in Sheets of Spiking Neurons with Local Lateral Inhibition. Description: Bill, Johannes, et al. Distributed Bayesian Computation and Self-Organized Learning in Sheets of Spiking Neurons with Local Lateral Inhibition. ''PLoS One''. 2015; '''10''' (8):e0134356
Driver Gaze Behavior Is Different in Normal Curve Driving and when Looking at the Tangent Point. Description: Itkonen, Teemu, et al. Driver Gaze Behavior Is Different in Normal Curve Driving and when Looking at the Tangent Point. ''PLoS One''. 2015; '''10''' (8):e0135505
Emergent Stratification in Solid Tumors Selects for Reduced Cohesion of Tumor Cells: A Multi-Cell, Virtual-Tissue Model of Tumor Evolution Using CompuCell3D. Description: Swat, Maciej H, et al. Emergent Stratification in Solid Tumors Selects for Reduced Cohesion of Tumor Cells: A Multi-Cell, Virtual-Tissue Model of Tumor Evolution Using CompuCell3D. ''PLoS One''. 2015; '''10''' (6):e0127972
Endonuclease specificity and sequence dependence of type IIS restriction enzymes. Description: Lundin, Sverker, et al. Endonuclease specificity and sequence dependence of type IIS restriction enzymes. ''PLoS One''. 2015; '''10''' (1):e0117059
Exploring antibiotic resistance genes and metal resistance genes in plasmid metagenomes from wastewater treatment plants. Description: Li, An-Dong, et al. Exploring antibiotic resistance genes and metal resistance genes in plasmid metagenomes from wastewater treatment plants. ''Front Microbiol''. 2015; '''6''': 1025
Extraction of pharmacokinetic evidence of drug-drug interactions from the literature. Description: Kolchinsky, Artemy, et al. Extraction of pharmacokinetic evidence of drug-drug interactions from the literature. ''PLoS One''. 2015; '''10''' (5):e0122199
Fickle or Faithful: The Roles of Host and Environmental Context in Determining Symbiont Composition in Two Bathymodioline Mussels. Description: Laming, Sven R, et al. Fickle or Faithful: The Roles of Host and Environmental Context in Determining Symbiont Composition in Two Bathymodioline Mussels. ''PLoS One''. 2015; '''10''' (12):e0144307
Functional Advantages of Conserved Intrinsic Disorder in RNA-Binding Proteins. Description: Varadi, Mihaly, et al. Functional Advantages of Conserved Intrinsic Disorder in RNA-Binding Proteins. ''PLoS One''. 2015; '''10''' (10):e0139731
High-Throughput Analysis of T-DNA Location and Structure Using Sequence Capture. Description: Inagaki, Soichi, et al. High-Throughput Analysis of T-DNA Location and Structure Using Sequence Capture. ''PLoS One''. 2015; '''10''' (10):e0139672
Host and non-host roots in rice: cellular and molecular approaches reveal differential responses to arbuscular mycorrhizal fungi. Description: Fiorilli, Valentina, et al. Host and non-host roots in rice: cellular and molecular approaches reveal differential responses to arbuscular mycorrhizal fungi. ''Front Plant Sci''. 2015; '''6''': 636
How Can Childbirth Care for the Rural Poor Be Improved? A Contribution from Spatial Modelling in Rural Tanzania. Description: Fogliati, Piera, et al. How Can Childbirth Care for the Rural Poor Be Improved? A Contribution from Spatial Modelling in Rural Tanzania. ''PLoS One''. 2015; '''10''' (9):e0139460
HPASubC: A suite of tools for user subclassification of human protein atlas tissue images. Description: Cornish, Toby C, et al. HPASubC: A suite of tools for user subclassification of human protein atlas tissue images. ''J Pathol Inform''. 2015; '''6''': 36
Insights into the Immunological Properties of Intrinsically Disordered Malaria Proteins Using Proteome Scale Predictions. Description: Guy, Andrew J, et al. Insights into the Immunological Properties of Intrinsically Disordered Malaria Proteins Using Proteome Scale Predictions. ''PLoS One''. 2015; '''10''' (10):e0141729
Integrated RNA-Seq and sRNA-Seq Analysis Identifies Chilling and Freezing Responsive Key Molecular Players and Pathways in Tea Plant (Camellia sinensis). Description: Zheng, Chao, et al. Integrated RNA-Seq and sRNA-Seq Analysis Identifies Chilling and Freezing Responsive Key Molecular Players and Pathways in Tea Plant (Camellia sinensis). ''PLoS One''. 2015; '''10''' (4):e0125031
Integrating solid-state NMR and computational modeling to investigate the structure and dynamics of membrane-associated ghrelin. Description: Vortmeier, Gerrit, et al. Integrating solid-state NMR and computational modeling to investigate the structure and dynamics of membrane-associated ghrelin. ''PLoS One''. 2015; '''10''' (3):e0122444
Large-Scale Evolutionary Analysis of Genes and Supergene Clusters from Terpenoid Modular Pathways Provides Insights into Metabolic Diversification in Flowering Plants. Description: Hofberger, Johannes A, et al. Large-Scale Evolutionary Analysis of Genes and Supergene Clusters from Terpenoid Modular Pathways Provides Insights into Metabolic Diversification in Flowering Plants. ''PLoS One''. 2015; '''10''' (6):e0128808
lncRScan-SVM: A Tool for Predicting Long Non-Coding RNAs Using Support Vector Machine. Description: Sun, Lei, et al. lncRScan-SVM: A Tool for Predicting Long Non-Coding RNAs Using Support Vector Machine. ''PLoS One''. 2015; '''10''' (10):e0139654
LymPHOS 2.0: an update of a phosphosite database of primary human T cells. Description: Nguyen, Tien Dung, et al. LymPHOS 2.0: an update of a phosphosite database of primary human T cells. ''Database (Oxford)''. 2015; '''2015''':
Mining Electronic Health Records using Linked Data. Description: Odgers, David J, et al. Mining Electronic Health Records using Linked Data. ''AMIA Jt Summits Transl Sci Proc''. 2015; '''2015''': 217-21
MinION Analysis and Reference Consortium: Phase 1 data release and analysis. Description: Ip, Camilla L C, et al. MinION Analysis and Reference Consortium: Phase 1 data release and analysis. ''F1000Res''. 2015; '''4''': 1075
Modeling Exon-Specific Bias Distribution Improves the Analysis of RNA-Seq Data. Description: Liu, Xuejun, et al. Modeling Exon-Specific Bias Distribution Improves the Analysis of RNA-Seq Data. ''PLoS One''. 2015; '''10''' (10):e0140032
Modulation of calmodulin lobes by different targets: an allosteric model with hemiconcerted conformational transitions. Description: Lai, Massimo, et al. Modulation of calmodulin lobes by different targets: an allosteric model with hemiconcerted conformational transitions. ''PLoS Comput Biol''. 2015 Jan; '''11''' (1):e1004063
Molecular phylogeny and biogeographic diversification of linnaeoideae (caprifoliaceae s. L.) disjunctly distributed in Eurasia, North America and Mexico. Description: Wang, Hua-Feng, et al. Molecular phylogeny and biogeographic diversification of linnaeoideae (caprifoliaceae s. L.) disjunctly distributed in Eurasia, North America and Mexico. ''PLoS One''. 2015; '''10''' (3):e0116485
Mutations in G protein beta subunits promote transformation and kinase inhibitor resistance. Description: Yoda, Akinori, et al. Mutations in G protein beta subunits promote transformation and kinase inhibitor resistance. ''Nat Med''. 2015 Jan; '''21''' (1):71-5
MXS-Chaining: A Highly Efficient Cloning Platform for Imaging and Flow Cytometry Approaches in Mammalian Systems. Description: Sladitschek, Hanna L, et al. MXS-Chaining: A Highly Efficient Cloning Platform for Imaging and Flow Cytometry Approaches in Mammalian Systems. ''PLoS One''. 2015; '''10''' (4):e0124958
Mycobacterium tuberculosis Type II Toxin-Antitoxin Systems: Genetic Polymorphisms and Functional Properties and the Possibility of Their Use for Genotyping. Description: Zaychikova, Marina V, et al. Mycobacterium tuberculosis Type II Toxin-Antitoxin Systems: Genetic Polymorphisms and Functional Properties and the Possibility of Their Use for Genotyping. ''PLoS One''. 2015; '''10''' (12):e0143682
Next Generation Semiconductor Based Sequencing of the Donkey (Equus asinus) Genome Provided Comparative Sequence Data against the Horse Genome and a Few Millions of Single Nucleotide Polymorphisms. Description: Bertolini, Francesca, et al. Next Generation Semiconductor Based Sequencing of the Donkey (Equus asinus) Genome Provided Comparative Sequence Data against the Horse Genome and a Few Millions of Single Nucleotide Polymorphisms. ''PLoS One''. 2015; '''10''' (7):e0131925
Occurrence of Isopenicillin-N-Synthase Homologs in Bioluminescent Ctenophores and Implications for Coelenterazine Biosynthesis. Description: Francis, Warren R, et al. Occurrence of Isopenicillin-N-Synthase Homologs in Bioluminescent Ctenophores and Implications for Coelenterazine Biosynthesis. ''PLoS One''. 2015; '''10''' (6):e0128742
Perturbation of parentally biased gene expression during interspecific hybridization. Description: Burkart-Waco, Diana, et al. Perturbation of parentally biased gene expression during interspecific hybridization. ''PLoS One''. 2015; '''10''' (2):e0117293
Phylogenetic analysis of higher-level relationships within Hydroidolina (Cnidaria: Hydrozoa) using mitochondrial genome data and insight into their mitochondrial transcription. Description: Kayal, Ehsan, et al. Phylogenetic analysis of higher-level relationships within Hydroidolina (Cnidaria: Hydrozoa) using mitochondrial genome data and insight into their mitochondrial transcription. ''PeerJ''. 2015; '''3''': e1403
Pleistocene niche stability and lineage diversification in the subtropical spider Araneus omnicolor (Araneidae). Description: Peres, Elen A, et al. Pleistocene niche stability and lineage diversification in the subtropical spider Araneus omnicolor (Araneidae). ''PLoS One''. 2015; '''10''' (4):e0121543
Reassortment between influenza B lineages and the emergence of a coadapted PB1-PB2-HA gene complex. Description: Dudas, Gytis, et al. Reassortment between influenza B lineages and the emergence of a coadapted PB1-PB2-HA gene complex. ''Mol Biol Evol''. 2015 Jan; '''32''' (1):162-72
RegNetwork: an integrated database of transcriptional and post-transcriptional regulatory networks in human and mouse. Description: Liu, Zhi-Ping, et al. RegNetwork: an integrated database of transcriptional and post-transcriptional regulatory networks in human and mouse. ''Database (Oxford)''. 2015; '''2015''':
Remnants of the Legume Ancestral Genome Preserved in Gene-Rich Regions: Insights from Lupinus angustifolius Physical, Genetic, and Comparative Mapping. Description: Ksiazkiewicz, Michal, et al. Remnants of the Legume Ancestral Genome Preserved in Gene-Rich Regions: Insights from Lupinus angustifolius Physical, Genetic, and Comparative Mapping. ''Plant Mol Biol Report''. 2015; '''33''': 84-101
Reproducibility of neuroimaging analyses across operating systems. Description: Glatard, Tristan, et al. Reproducibility of neuroimaging analyses across operating systems. ''Front Neuroinform''. 2015; '''9''': 12
RNA sequencing of Populus x canadensis roots identifies key molecular mechanisms underlying physiological adaption to excess zinc. Description: Ariani, Andrea, et al. RNA sequencing of Populus x canadensis roots identifies key molecular mechanisms underlying physiological adaption to excess zinc. ''PLoS One''. 2015; '''10''' (2):e0117571
Similarity thresholds used in DNA sequence assembly from short reads can reduce the comparability of population histories across species. Description: Harvey, Michael G, et al. Similarity thresholds used in DNA sequence assembly from short reads can reduce the comparability of population histories across species. ''PeerJ''. 2015; '''3''': e895
Snapshot Serengeti, high-frequency annotated camera trap images of 40 mammalian species in an African savanna. Description: Swanson, Alexandra, et al. Snapshot Serengeti, high-frequency annotated camera trap images of 40 mammalian species in an African savanna. ''Sci Data''. 2015; '''2''': 150026
Species interactions differ in their genetic robustness. Description: Chubiz, Lon M, et al. Species interactions differ in their genetic robustness. ''Front Microbiol''. 2015; '''6''': 271
Stable phase-shift despite quasi-rhythmic movements: a CPG-driven dynamic model of active tactile exploration in an insect. Description: Harischandra, Nalin, et al. Stable phase-shift despite quasi-rhythmic movements: a CPG-driven dynamic model of active tactile exploration in an insect. ''Front Comput Neurosci''. 2015; '''9''': 107
Structure of a mammalian ryanodine receptor. Description: Zalk, Ran, et al. Structure of a mammalian ryanodine receptor. ''Nature''. 2015 Jan 1; '''517''' (7532):44-9
Targeted Sequencing of the Mitochondrial Genome of Women at High Risk of Breast Cancer without Detectable Mutations in BRCA1/2. Description: Blein, Sophie, et al. Targeted Sequencing of the Mitochondrial Genome of Women at High Risk of Breast Cancer without Detectable Mutations in BRCA1/2. ''PLoS One''. 2015; '''10''' (9):e0136192
The association of late-acting snoRNPs with human pre-ribosomal complexes requires the RNA helicase DDX21. Description: Sloan, Katherine E, et al. The association of late-acting snoRNPs with human pre-ribosomal complexes requires the RNA helicase DDX21. ''Nucleic Acids Res''. 2015 Jan; '''43''' (1):553-64
The evidence for increased L1 activity in the site of human adult brain neurogenesis. Description: Kurnosov, Alexey A, et al. The evidence for increased L1 activity in the site of human adult brain neurogenesis. ''PLoS One''. 2015; '''10''' (2):e0117854
The Identification of Circulating MiRNA in Bovine Serum and Their Potential as Novel Biomarkers of Early Mycobacterium avium subsp paratuberculosis Infection. Description: Farrell, Damien, et al. The Identification of Circulating MiRNA in Bovine Serum and Their Potential as Novel Biomarkers of Early Mycobacterium avium subsp paratuberculosis Infection. ''PLoS One''. 2015; '''10''' (7):e0134310
The khmer software package: enabling efficient nucleotide sequence analysis. Description: Crusoe, Michael R, et al. The khmer software package: enabling efficient nucleotide sequence analysis. ''F1000Res''. 2015; '''4''': 900
The molecular basis for control of ETEC enterotoxin expression in response to environment and host. Description: Haycocks, James R J, et al. The molecular basis for control of ETEC enterotoxin expression in response to environment and host. ''PLoS Pathog''. 2015 Jan; '''11''' (1):e1004605
Transcriptator: An Automated Computational Pipeline to Annotate Assembled Reads and Identify Non Coding RNA. Description: Tripathi, Kumar Parijat, et al. Transcriptator: An Automated Computational Pipeline to Annotate Assembled Reads and Identify Non Coding RNA. ''PLoS One''. 2015; '''10''' (11):e0140268
TRPM8-Dependent Dynamic Response in a Mathematical Model of Cold Thermoreceptor. Description: Olivares, Erick, et al. TRPM8-Dependent Dynamic Response in a Mathematical Model of Cold Thermoreceptor. ''PLoS One''. 2015; '''10''' (10):e0139314
Turbulence-driven shifts in holobionts and planktonic microbial assemblages in St. Peter and St. Paul Archipelago, Mid-Atlantic Ridge, Brazil. Description: Moreira, Ana Paula B, et al. Turbulence-driven shifts in holobionts and planktonic microbial assemblages in St. Peter and St. Paul Archipelago, Mid-Atlantic Ridge, Brazil. ''Front Microbiol''. 2015; '''6''': 1038
Ultradeep analysis of tumor heterogeneity in regions of somatic hypermutation. Description: Spence, Janice M, et al. Ultradeep analysis of tumor heterogeneity in regions of somatic hypermutation. ''Genome Med''. 2015; '''7''' (1):24
Whole genome investigation of a divergent clade of the pathogen Streptococcus suis. Description: Baig, Abiyad, et al. Whole genome investigation of a divergent clade of the pathogen Streptococcus suis. ''Front Microbiol''. 2015; '''6''': 1191
Amino acid coevolution reveals three-dimensional structure and functional domains of insect odorant receptors. Description: Hopf, Thomas A, et al. Amino acid coevolution reveals three-dimensional structure and functional domains of insect odorant receptors. ''Nat Commun''. 2015 Jan 13; '''6''': 6077
Churchill: an ultra-fast, deterministic, highly scalable and balanced parallelization strategy for the discovery of human genetic variation in clinical and population-scale genomics. Description: Kelly, Benjamin J, et al. Churchill: an ultra-fast, deterministic, highly scalable and balanced parallelization strategy for the discovery of human genetic variation in clinical and population-scale genomics. ''Genome Biol''. 2015 Jan 20; '''16''': 6
Functional analysis of Girardia tigrina transcriptome seeds pipeline for anthelmintic target discovery. Description: Wheeler, Nicolas J, et al. Functional analysis of Girardia tigrina transcriptome seeds pipeline for anthelmintic target discovery. ''Parasit Vectors''. 2015 Jan 20; '''8''': 34
GC-Content evolution in bacterial genomes: the biased gene conversion hypothesis expands. Description: Lassalle, Florent, et al. GC-Content evolution in bacterial genomes: the biased gene conversion hypothesis expands. ''PLoS Genet''. 2015 Feb; '''11''' (2):e1004941
Protein complexes in bacteria. Description: Caufield, J Harry, et al. Protein complexes in bacteria. ''PLoS Comput Biol''. 2015 Feb; '''11''' (2):e1004107
Segment-specific adhesion as a driver of convergent extension. Description: Vroomans, Renske M A, et al. Segment-specific adhesion as a driver of convergent extension. ''PLoS Comput Biol''. 2015 Feb; '''11''' (2):e1004092
New insights into the fungal community from the raw genomic sequence data of fig wasp Ceratosolen solmsi. Description: Niu, Li-Hua, et al. New insights into the fungal community from the raw genomic sequence data of fig wasp Ceratosolen solmsi. ''BMC Microbiol''. 2015 Feb 12; '''15''': 27
Identification of caveolar resident proteins in ventricular myocytes using a quantitative proteomic approach: dynamic changes in caveolar composition following adrenoceptor activation. Description: Wypijewski, Krzysztof J, et al. Identification of caveolar resident proteins in ventricular myocytes using a quantitative proteomic approach: dynamic changes in caveolar composition following adrenoceptor activation. ''Mol Cell Proteomics''. 2015 Mar; '''14''' (3):596-608
Development and preliminary evaluation of a 90 K Axiom(R) SNP array for the allo-octoploid cultivated strawberry Fragaria x ananassa. Description: Bassil, Nahla V, et al. Development and preliminary evaluation of a 90 K Axiom(R) SNP array for the allo-octoploid cultivated strawberry Fragaria x ananassa. ''BMC Genomics''. 2015 Mar 7; '''16''': 155
A property-based analysis of human transcription factors. Description: Bahrami, Shahram, et al. A property-based analysis of human transcription factors. ''BMC Res Notes''. 2015 Mar 14; '''8''': 82
The bacterial communities associated with fecal types and body weight of rex rabbits. Description: Zeng, Bo, et al. The bacterial communities associated with fecal types and body weight of rex rabbits. ''Sci Rep''. 2015 Mar 20; '''5''': 9342
A new platform for ultra-high density Staphylococcus aureus transposon libraries. Description: Santiago, Marina, et al. A new platform for ultra-high density Staphylococcus aureus transposon libraries. ''BMC Genomics''. 2015 Mar 29; '''16''': 252
Dynamic endothelial cell rearrangements drive developmental vessel regression. Description: Franco, Claudio A, et al. Dynamic endothelial cell rearrangements drive developmental vessel regression. ''PLoS Biol''. 2015 Apr; '''13''' (4):e1002125
Local evolutionary patterns of human respiratory syncytial virus derived from whole-genome sequencing. Description: Agoti, Charles N, et al. Local evolutionary patterns of human respiratory syncytial virus derived from whole-genome sequencing. ''J Virol''. 2015 Apr; '''89''' (7):3444-54
Microprocessor mediates transcriptional termination of long noncoding RNA transcripts hosting microRNAs. Description: Dhir, Ashish, et al. Microprocessor mediates transcriptional termination of long noncoding RNA transcripts hosting microRNAs. ''Nat Struct Mol Biol''. 2015 Apr; '''22''' (4):319-27
The aspartate-less receiver (ALR) domains: distribution, structure and function. Description: Maule, Andrew F, et al. The aspartate-less receiver (ALR) domains: distribution, structure and function. ''PLoS Pathog''. 2015 Apr; '''11''' (4):e1004795
Ubiquitous L1 mosaicism in hippocampal neurons. Description: Upton, Kyle R, et al. Ubiquitous L1 mosaicism in hippocampal neurons. ''Cell''. 2015 Apr 9; '''161''' (2):228-39
Endogenous siRNAs and piRNAs derived from transposable elements and genes in the malaria vector mosquito Anopheles gambiae. Description: Biryukova, Inna, et al. Endogenous siRNAs and piRNAs derived from transposable elements and genes in the malaria vector mosquito Anopheles gambiae. ''BMC Genomics''. 2015 Apr 10; '''16''': 278
Identification of candidate mimicry proteins involved in parasite-driven phenotypic changes. Description: Hebert, Francois Olivier, et al. Identification of candidate mimicry proteins involved in parasite-driven phenotypic changes. ''Parasit Vectors''. 2015 Apr 15; '''8''': 225
Specific interaction with the nuclear transporter importin alpha2 can modulate paraspeckle protein 1 delivery to nuclear paraspeckles. Description: Major, Andrew T, et al. Specific interaction with the nuclear transporter importin alpha2 can modulate paraspeckle protein 1 delivery to nuclear paraspeckles. ''Mol Biol Cell''. 2015 Apr 15; '''26''' (8):1543-58
Identification and characterization of cichlid TAAR genes and comparison with other teleost TAAR repertoires. Description: Azzouzi, Naoual, et al. Identification and characterization of cichlid TAAR genes and comparison with other teleost TAAR repertoires. ''BMC Genomics''. 2015 Apr 23; '''16''': 335
Long-range evolutionary constraints reveal cis-regulatory interactions on the human X chromosome. Description: Naville, Magali, et al. Long-range evolutionary constraints reveal cis-regulatory interactions on the human X chromosome. ''Nat Commun''. 2015 Apr 24; '''6''': 6904
Biallelic mutations in SNX14 cause a syndromic form of cerebellar atrophy and lysosome-autophagosome dysfunction. Description: Akizu, Naiara, et al. Biallelic mutations in SNX14 cause a syndromic form of cerebellar atrophy and lysosome-autophagosome dysfunction. ''Nat Genet''. 2015 May; '''47''' (5):528-34
Brain Dynamics of Aging: Multiscale Variability of EEG Signals at Rest and during an Auditory Oddball Task Description: Sleimen-Malkoun, Rita, et al. Brain Dynamics of Aging: Multiscale Variability of EEG Signals at Rest and during an Auditory Oddball Task ''eNeuro''. 2015 May-Jun; '''2''' (3):
Raster-scanning serial protein crystallography using micro- and nano-focused synchrotron beams. Description: Coquelle, Nicolas, et al. Raster-scanning serial protein crystallography using micro- and nano-focused synchrotron beams. ''Acta Crystallogr D Biol Crystallogr''. 2015 May; '''71''' (Pt 5):1184-96
The evaluation of tools used to predict the impact of missense variants is hindered by two types of circularity. Description: Grimm, Dominik G, et al. The evaluation of tools used to predict the impact of missense variants is hindered by two types of circularity. ''Hum Mutat''. 2015 May; '''36''' (5):513-23
Utilizing the Wikidata system to improve the quality of medical content in Wikipedia in diverse languages: a pilot study. Description: Pfundner, Alexander, et al. Utilizing the Wikidata system to improve the quality of medical content in Wikipedia in diverse languages: a pilot study. ''J Med Internet Res''. 2015 May 5; '''17''' (5):e110
MorphoGraphX: A platform for quantifying morphogenesis in 4D. Description: Barbier de Reuille, Pierre, et al. MorphoGraphX: A platform for quantifying morphogenesis in 4D. ''Elife''. 2015 May 6; '''4''': 05864
Evolution of the Translocation and Assembly Module (TAM). Description: Heinz, Eva, et al. Evolution of the Translocation and Assembly Module (TAM). ''Genome Biol Evol''. 2015 May 20; '''7''' (6):1628-43
Comparative analysis of plant carbohydrate active enZymes and their role in xylogenesis. Description: Pinard, Desre, et al. Comparative analysis of plant carbohydrate active enZymes and their role in xylogenesis. ''BMC Genomics''. 2015 May 22; '''16''': 402
Sequencing the cap-snatching repertoire of H1N1 influenza provides insight into the mechanism of viral transcription initiation. Description: Koppstein, David, et al. Sequencing the cap-snatching repertoire of H1N1 influenza provides insight into the mechanism of viral transcription initiation. ''Nucleic Acids Res''. 2015 May 26; '''43''' (10):5052-64
Cross-species comparative analysis of Dicer proteins during Sindbis virus infection. Description: Girardi, Erika, et al. Cross-species comparative analysis of Dicer proteins during Sindbis virus infection. ''Sci Rep''. 2015 May 29; '''5''': 10693
Massive parallel IGHV gene sequencing reveals a germinal center pathway in origins of human multiple myeloma. Description: Cowan, Graeme, et al. Massive parallel IGHV gene sequencing reveals a germinal center pathway in origins of human multiple myeloma. ''Oncotarget''. 2015 May 30; '''6''' (15):13229-40
Single nucleotide resolution RNA-seq uncovers new regulatory mechanisms in the opportunistic pathogen Streptococcus agalactiae. Description: Rosinski-Chupin, Isabelle, et al. Single nucleotide resolution RNA-seq uncovers new regulatory mechanisms in the opportunistic pathogen Streptococcus agalactiae. ''BMC Genomics''. 2015 May 30; '''16''': 419
Biochemical and computational analyses of two phenotypically related GALT mutations (S222N and S135L) that lead to atypical galactosemia. Description: Cocanougher, Benjamin, et al. Biochemical and computational analyses of two phenotypically related GALT mutations (S222N and S135L) that lead to atypical galactosemia. ''Data Brief''. 2015 Jun; '''3''': 34-9
Data for chromosome contacts and matched transcription profiles at three cell cycle phases in the fission yeast. Description: Grand, Ralph S, et al. Data for chromosome contacts and matched transcription profiles at three cell cycle phases in the fission yeast. ''Genom Data''. 2015 Jun; '''4''': 12-6
Discovery of cancer drug targets by CRISPR-Cas9 screening of protein domains. Description: Shi, Junwei, et al. Discovery of cancer drug targets by CRISPR-Cas9 screening of protein domains. ''Nat Biotechnol''. 2015 Jun; '''33''' (6):661-7
The Drosophila Helicase Maleless (MLE) is Implicated in Functions Distinct From its Role in Dosage Compensation. Description: Cugusi, Simona, et al. The Drosophila Helicase Maleless (MLE) is Implicated in Functions Distinct From its Role in Dosage Compensation. ''Mol Cell Proteomics''. 2015 Jun; '''14''' (6):1478-88
Novel and rare functional genomic variants in multiple autoimmune syndrome and Sjogren's syndrome. Description: Johar, Angad S, et al. Novel and rare functional genomic variants in multiple autoimmune syndrome and Sjogren's syndrome. ''J Transl Med''. 2015 Jun 2; '''13''': 173
RNA-seq analysis reveals genetic response and tolerance mechanisms to ozone exposure in soybean. Description: Whaley, Adam, et al. RNA-seq analysis reveals genetic response and tolerance mechanisms to ozone exposure in soybean. ''BMC Genomics''. 2015 Jun 4; '''16''': 426
Whole genome capture of vector-borne pathogens from mixed DNA samples: a case study of Borrelia burgdorferi. Description: Carpi, Giovanna, et al. Whole genome capture of vector-borne pathogens from mixed DNA samples: a case study of Borrelia burgdorferi. ''BMC Genomics''. 2015 Jun 6; '''16''': 434
Alchembed: A Computational Method for Incorporating Multiple Proteins into Complex Lipid Geometries. Description: Jefferys, Elizabeth, et al. Alchembed: A Computational Method for Incorporating Multiple Proteins into Complex Lipid Geometries. ''J Chem Theory Comput''. 2015 Jun 9; '''11''' (6):2743-2754
Comprehensive analysis of Panax ginseng root transcriptomes. Description: Jayakodi, Murukarthick, et al. Comprehensive analysis of Panax ginseng root transcriptomes. ''BMC Plant Biol''. 2015 Jun 12; '''15''': 138
Dgcr8 and Dicer are essential for sex chromosome integrity during meiosis in males. Description: Modzelewski, Andrew J, et al. Dgcr8 and Dicer are essential for sex chromosome integrity during meiosis in males. ''J Cell Sci''. 2015 Jun 15; '''128''' (12):2314-27
Intermolecular epistasis shaped the function and evolution of an ancient transcription factor and its DNA binding sites. Description: Anderson, Dave W, et al. Intermolecular epistasis shaped the function and evolution of an ancient transcription factor and its DNA binding sites. ''Elife''. 2015 Jun 15; '''4''': e07864
Proteogenomic analysis reveals exosomes are more oncogenic than ectosomes. Description: Keerthikumar, Shivakumar, et al. Proteogenomic analysis reveals exosomes are more oncogenic than ectosomes. ''Oncotarget''. 2015 Jun 20; '''6''' (17):15375-96
Duplex stem-loop-containing quadruplex motifs in the human genome: a combined genomic and structural study. Description: Lim, Kah Wai, et al. Duplex stem-loop-containing quadruplex motifs in the human genome: a combined genomic and structural study. ''Nucleic Acids Res''. 2015 Jun 23; '''43''' (11):5630-46
Comparative analyses of clinical and environmental populations of Cryptococcus neoformans in Botswana. Description: Chen, Yuan, et al. Comparative analyses of clinical and environmental populations of Cryptococcus neoformans in Botswana. ''Mol Ecol''. 2015 Jul; '''24''' (14):3559-71
Deep sequencing analysis of viral infection and evolution allows rapid and detailed characterization of viral mutant spectrum. Description: Isakov, Ofer, et al. Deep sequencing analysis of viral infection and evolution allows rapid and detailed characterization of viral mutant spectrum. ''Bioinformatics''. 2015 Jul 1; '''31''' (13):2141-50
Neutral Models of Microbiome Evolution. Description: Zeng, Qinglong, et al. Neutral Models of Microbiome Evolution. ''PLoS Comput Biol''. 2015 Jul; '''11''' (7):e1004365
Transcriptome-facilitated development of SNPs for the Sonoran Desert rock fig, Ficus petiolaris (Moraceae). Description: Davis, Nicholas G, et al. Transcriptome-facilitated development of SNPs for the Sonoran Desert rock fig, Ficus petiolaris (Moraceae). ''Appl Plant Sci''. 2015 Jul; '''3''' (7):
Allostery through the computational microscope: cAMP activation of a canonical signalling domain. Description: Malmstrom, Robert D, et al. Allostery through the computational microscope: cAMP activation of a canonical signalling domain. ''Nat Commun''. 2015 Jul 6; '''6''': 7588
Building Data-Driven Pathways From Routinely Collected Hospital Data: A Case Study on Prostate Cancer. Description: Bettencourt-Silva, Joao H, et al. Building Data-Driven Pathways From Routinely Collected Hospital Data: A Case Study on Prostate Cancer. ''JMIR Med Inform''. 2015 Jul 10; '''3''' (3):e26
miFRame: analysis and visualization of miRNA sequencing data in neurological disorders. Description: Backes, Christina, et al. miFRame: analysis and visualization of miRNA sequencing data in neurological disorders. ''J Transl Med''. 2015 Jul 14; '''13''': 224
The 2014 liver ultrasound tracking benchmark. Description: De Luca, V, et al. The 2014 liver ultrasound tracking benchmark. ''Phys Med Biol''. 2015 Jul 21; '''60''' (14):5571-99
Gains and Losses of Transcription Factor Binding Sites in Saccharomyces cerevisiae and Saccharomyces paradoxus. Description: Schaefke, Bernhard, et al. Gains and Losses of Transcription Factor Binding Sites in Saccharomyces cerevisiae and Saccharomyces paradoxus. ''Genome Biol Evol''. 2015 Jul 27; '''7''' (8):2245-57
Experimental evidence of genome-wide impact of ecological selection during early stages of speciation-with-gene-flow. Description: Egan, Scott P, et al. Experimental evidence of genome-wide impact of ecological selection during early stages of speciation-with-gene-flow. ''Ecol Lett''. 2015 Aug; '''18''' (8):817-825
Transcription dynamically patterns the meiotic chromosome-axis interface. Description: Sun, Xiaoji, et al. Transcription dynamically patterns the meiotic chromosome-axis interface. ''Elife''. 2015 Aug 10; '''4''':
Assessing Recent Selection and Functionality at Long Noncoding RNA Loci in the Mouse Genome. Description: Wiberg, R Axel W, et al. Assessing Recent Selection and Functionality at Long Noncoding RNA Loci in the Mouse Genome. ''Genome Biol Evol''. 2015 Aug 12; '''7''' (8):2432-44
DNA loops generate intracentromere tension in mitosis. Description: Lawrimore, Josh, et al. DNA loops generate intracentromere tension in mitosis. ''J Cell Biol''. 2015 Aug 17; '''210''' (4):553-64
Cattle NK Cell Heterogeneity and the Influence of MHC Class I. Description: Allan, Alasdair J, et al. Cattle NK Cell Heterogeneity and the Influence of MHC Class I. ''J Immunol''. 2015 Sep 1; '''195''' (5):2199-206
Phylodynamic Inference with Kernel ABC and Its Application to HIV Epidemiology. Description: Poon, Art F Y. Phylodynamic Inference with Kernel ABC and Its Application to HIV Epidemiology. ''Mol Biol Evol''. 2015 Sep; '''32''' (9):2483-95
Angiosperms Are Unique among Land Plant Lineages in the Occurrence of Key Genes in the RNA-Directed DNA Methylation (RdDM) Pathway. Description: Ma, Lu, et al. Angiosperms Are Unique among Land Plant Lineages in the Occurrence of Key Genes in the RNA-Directed DNA Methylation (RdDM) Pathway. ''Genome Biol Evol''. 2015 Sep 2; '''7''' (9):2648-62
Combinatorial DNA Rearrangement Facilitates the Origin of New Genes in Ciliates. Description: Chen, Xiao, et al. Combinatorial DNA Rearrangement Facilitates the Origin of New Genes in Ciliates. ''Genome Biol Evol''. 2015 Sep 2; '''7''' (10):2859-70
Assigning and visualizing germline genes in antibody repertoires. Description: Frost, Simon D W, et al. Assigning and visualizing germline genes in antibody repertoires. ''Philos Trans R Soc Lond B Biol Sci''. 2015 Sep 5; '''370''' (1676):
Genome-wide mutation profiles of colorectal tumors and associated liver metastases at the exome and transcriptome levels. Description: Lim, Byungho, et al. Genome-wide mutation profiles of colorectal tumors and associated liver metastases at the exome and transcriptome levels. ''Oncotarget''. 2015 Sep 8; '''6''' (26):22179-90
Transcriptome Profiling of the Endophyte Burkholderia phytofirmans PsJN Indicates Sensing of the Plant Environment and Drought Stress. Description: Sheibani-Tezerji, Raheleh, et al. Transcriptome Profiling of the Endophyte Burkholderia phytofirmans PsJN Indicates Sensing of the Plant Environment and Drought Stress. ''mBio''. 2015 Sep 8; '''6''' (5):e00621-15
EGFR gene methylation is not involved in Royalactin controlled phenotypic polymorphism in honey bees. Description: Kucharski, R, et al. EGFR gene methylation is not involved in Royalactin controlled phenotypic polymorphism in honey bees. ''Sci Rep''. 2015 Sep 11; '''5''': 14070
Limited evidence that cancer susceptibility regions are preferential targets for somatic mutation. Description: Machiela, Mitchell J, et al. Limited evidence that cancer susceptibility regions are preferential targets for somatic mutation. ''Genome Biol''. 2015 Sep 15; '''16''': 193
Kinome-wide decoding of network-attacking mutations rewiring cancer signaling. Description: Creixell, Pau, et al. Kinome-wide decoding of network-attacking mutations rewiring cancer signaling. ''Cell''. 2015 Sep 24; '''163''' (1):202-17
Ontogenetic Differences in Dietary Fat Influence Microbiota Assembly in the Zebrafish Gut. Description: Wong, Sandi, et al. Ontogenetic Differences in Dietary Fat Influence Microbiota Assembly in the Zebrafish Gut. ''mBio''. 2015 Sep 29; '''6''' (5):e00687-15
A discrete chromatin loop in the mouse Tcra-Tcrd locus shapes the TCRdelta and TCRalpha repertoires. Description: Chen, Liang, et al. A discrete chromatin loop in the mouse Tcra-Tcrd locus shapes the TCRdelta and TCRalpha repertoires. ''Nat Immunol''. 2015 Oct; '''16''' (10):1085-93
Mapping the Protein Fold Universe Using the CamTube Force Field in Molecular Dynamics Simulations. Description: Kukic, Predrag, et al. Mapping the Protein Fold Universe Using the CamTube Force Field in Molecular Dynamics Simulations. ''PLoS Comput Biol''. 2015 Oct; '''11''' (10):e1004435
Molecular Epidemiology and Evolution of Influenza Viruses Circulating within European Swine between 2009 and 2013. Description: Watson, Simon J, et al. Molecular Epidemiology and Evolution of Influenza Viruses Circulating within European Swine between 2009 and 2013. ''J Virol''. 2015 Oct; '''89''' (19):9920-31
More than one way to see it: Individual heuristics in avian visual computation. Description: Ravignani, Andrea, et al. More than one way to see it: Individual heuristics in avian visual computation. ''Cognition''. 2015 Oct; '''143''': 13-24
Multiscale Estimation of Binding Kinetics Using Brownian Dynamics, Molecular Dynamics and Milestoning. Description: Votapka, Lane W, et al. Multiscale Estimation of Binding Kinetics Using Brownian Dynamics, Molecular Dynamics and Milestoning. ''PLoS Comput Biol''. 2015 Oct; '''11''' (10):e1004381
Subassemblies and asymmetry in assembly of herpes simplex virus procapsid. Description: Aksyuk, Anastasia A, et al. Subassemblies and asymmetry in assembly of herpes simplex virus procapsid. ''MBio''. 2015 Oct 6; '''6''' (5):e01525-15
Fission yeast kinesin-8 controls chromosome congression independently of oscillations. Description: Mary, Hadrien, et al. Fission yeast kinesin-8 controls chromosome congression independently of oscillations. ''J Cell Sci''. 2015 Oct 15; '''128''' (20):3720-30
An internal promoter underlies the difference in disease severity between N- and C-terminal truncation mutations of Titin in zebrafish. Description: Zou, Jun, et al. An internal promoter underlies the difference in disease severity between N- and C-terminal truncation mutations of Titin in zebrafish. ''Elife''. 2015 Oct 16; '''4''': e09406
Improving RNA-Seq expression estimation by modeling isoform- and exon-specific read sequencing rate. Description: Liu, Xuejun, et al. Improving RNA-Seq expression estimation by modeling isoform- and exon-specific read sequencing rate. ''BMC Bioinformatics''. 2015 Oct 16; '''16''': 332
In silico hybridization enables transcriptomic illumination of the nature and evolution of Myxozoa. Description: Foox, Jonathan, et al. In silico hybridization enables transcriptomic illumination of the nature and evolution of Myxozoa. ''BMC Genomics''. 2015 Oct 23; '''16''': 840
Phylogenomics and sequence-structure-function relationships in the GmrSD family of Type IV restriction enzymes. Description: Machnicka, Magdalena A, et al. Phylogenomics and sequence-structure-function relationships in the GmrSD family of Type IV restriction enzymes. ''BMC Bioinformatics''. 2015 Oct 23; '''16''': 336
Identification of High-Impact cis-Regulatory Mutations Using Transcription Factor Specific Random Forest Models. Description: Svetlichnyy, Dmitry, et al. Identification of High-Impact cis-Regulatory Mutations Using Transcription Factor Specific Random Forest Models. ''PLoS Comput Biol''. 2015 Nov; '''11''' (11):e1004590
The vgll3 Locus Controls Age at Maturity in Wild and Domesticated Atlantic Salmon (Salmo salar L.) Males. Description: Ayllon, Fernando, et al. The vgll3 Locus Controls Age at Maturity in Wild and Domesticated Atlantic Salmon (Salmo salar L.) Males. ''PLoS Genet''. 2015 Nov; '''11''' (11):e1005628
Determining multiallelic complex copy number and sequence variation from high coverage exome sequencing data. Description: Forni, Diego, et al. Determining multiallelic complex copy number and sequence variation from high coverage exome sequencing data. ''BMC Genomics''. 2015 Nov 2; '''16''': 891
The Distant Siblings-A Phylogenomic Roadmap Illuminates the Origins of Extant Diversity in Fungal Aromatic Polyketide Biosynthesis. Description: Koczyk, Grzegorz, et al. The Distant Siblings-A Phylogenomic Roadmap Illuminates the Origins of Extant Diversity in Fungal Aromatic Polyketide Biosynthesis. ''Genome Biol Evol''. 2015 Nov 3; '''7''' (11):3132-54
Evolutionarily Conserved Sequence Features Regulate the Formation of the FG Network at the Center of the Nuclear Pore Complex. Description: Peyro, M, et al. Evolutionarily Conserved Sequence Features Regulate the Formation of the FG Network at the Center of the Nuclear Pore Complex. ''Sci Rep''. 2015 Nov 6; '''5''': 15795
Variant mapping and mutation discovery in inbred mice using next-generation sequencing. Description: Gallego-Llamas, Jabier, et al. Variant mapping and mutation discovery in inbred mice using next-generation sequencing. ''BMC Genomics''. 2015 Nov 9; '''16''': 913
Active Control of Cell Size Generates Spatial Detail during Plant Organogenesis. Description: Serrano-Mislata, Antonio, et al. Active Control of Cell Size Generates Spatial Detail during Plant Organogenesis. ''Curr Biol''. 2015 Nov 16; '''25''' (22):2991-6
Inferring the hosts of coronavirus using dual statistical models based on nucleotide composition. Description: Tang, Qin, et al. Inferring the hosts of coronavirus using dual statistical models based on nucleotide composition. ''Sci Rep''. 2015 Nov 26; '''5''': 17155
Data in support of UbSRD: The Ubiquitin Structural Relational Database. Description: Harrison, Joseph S, et al. Data in support of UbSRD: The Ubiquitin Structural Relational Database. ''Data Brief''. 2015 Dec; '''5''': 605-15
Identification of minimal eukaryotic introns through GeneBase, a user-friendly tool for parsing the NCBI Gene databank. Description: Piovesan, Allison, et al. Identification of minimal eukaryotic introns through GeneBase, a user-friendly tool for parsing the NCBI Gene databank. ''DNA Res''. 2015 Dec; '''22''' (6):495-503
Identification of Nicotiana benthamiana microRNAs and their targets using high throughput sequencing and degradome analysis. Description: Baksa, Ivett, et al. Identification of Nicotiana benthamiana microRNAs and their targets using high throughput sequencing and degradome analysis. ''BMC Genomics''. 2015 Dec 1; '''16''': 1025
Prediction of Indoor Air Exposure from Outdoor Air Quality Using an Artificial Neural Network Model for Inner City Commercial Buildings. Description: Challoner, Avril, et al. Prediction of Indoor Air Exposure from Outdoor Air Quality Using an Artificial Neural Network Model for Inner City Commercial Buildings. ''Int J Environ Res Public Health''. 2015 Dec 1; '''12''' (12):15233-53
The Extraintestinal Pathogenic Escherichia coli Factor RqlI Constrains the Genotoxic Effects of the RecQ-Like Helicase RqlH. Description: Russell, Colin W, et al. The Extraintestinal Pathogenic Escherichia coli Factor RqlI Constrains the Genotoxic Effects of the RecQ-Like Helicase RqlH. ''PLoS Pathog''. 2015 Dec; '''11''' (12):e1005317
Identification of bacterial sRNA regulatory targets using ribosome profiling. Description: Wang, Jing, et al. Identification of bacterial sRNA regulatory targets using ribosome profiling. ''Nucleic Acids Res''. 2015 Dec 2; '''43''' (21):10308-20
Hair-bundle proteomes of avian and mammalian inner-ear utricles. Description: Wilmarth, Phillip A, et al. Hair-bundle proteomes of avian and mammalian inner-ear utricles. ''Sci Data''. 2015 Dec 8; '''2''': 150074
Population genomics of intrapatient HIV-1 evolution. Description: Zanini, Fabio, et al. Population genomics of intrapatient HIV-1 evolution. ''Elife''. 2015 Dec 11; '''4''':
Dynamic modulation of Dnmt2-dependent tRNA methylation by the micronutrient queuine. Description: Muller, Martin, et al. Dynamic modulation of Dnmt2-dependent tRNA methylation by the micronutrient queuine. ''Nucleic Acids Res''. 2015 Dec 15; '''43''' (22):10952-62
FGF/MAPK signaling sets the switching threshold of a bistable circuit controlling cell fate decisions in embryonic stem cells. Description: Schroter, Christian, et al. FGF/MAPK signaling sets the switching threshold of a bistable circuit controlling cell fate decisions in embryonic stem cells. ''Development''. 2015 Dec 15; '''142''' (24):4205-16
Mariner transposons are sailing in the genome of the blood-sucking bug Rhodnius prolixus. Description: Filee, Jonathan, et al. Mariner transposons are sailing in the genome of the blood-sucking bug Rhodnius prolixus. ''BMC Genomics''. 2015 Dec 15; '''16''': 1061
Abasic pivot substitution harnesses target specificity of RNA interference. Description: Lee, Hye-Sook, et al. Abasic pivot substitution harnesses target specificity of RNA interference. ''Nat Commun''. 2015 Dec 18; '''6''': 10154
The bimodally expressed microRNA miR-142 gates exit from pluripotency. Description: Sladitschek, Hanna L, et al. The bimodally expressed microRNA miR-142 gates exit from pluripotency. ''Mol Syst Biol''. 2015 Dec 21; '''11''' (12):850
Transcriptome analysis in calorie-restricted rats implicates epigenetic and post-translational mechanisms in neuroprotection and aging. Description: Wood, Shona H, et al. Transcriptome analysis in calorie-restricted rats implicates epigenetic and post-translational mechanisms in neuroprotection and aging. ''Genome Biol''. 2015 Dec 22; '''16''': 285
Analysis of DNA Methylation and Hydroxymethylation in the Genome of Crustacean Daphnia pulex. Description: Strepetkaite, Dovile, et al. Analysis of DNA Methylation and Hydroxymethylation in the Genome of Crustacean Daphnia pulex. ''Genes (Basel)''. 2015 Dec 31; '''7''' (1):
8-Oxoguanine Affects DNA Backbone Conformation in the EcoRI Recognition Site and Inhibits Its Cleavage by the Enzyme. Description: Hoppins, Joanna J, et al. 8-Oxoguanine Affects DNA Backbone Conformation in the EcoRI Recognition Site and Inhibits Its Cleavage by the Enzyme. ''PLoS One''. 2016; '''11''' (10):e0164424
A Markovian Entropy Measure for the Analysis of Calcium Activity Time Series. Description: Marken, John P, et al. A Markovian Entropy Measure for the Analysis of Calcium Activity Time Series. ''PLoS One''. 2016; '''11''' (12):e0168342
Ancestral vinclozolin exposure alters the epigenetic transgenerational inheritance of sperm small noncoding RNAs. Description: Schuster, Andrew, et al. Ancestral vinclozolin exposure alters the epigenetic transgenerational inheritance of sperm small noncoding RNAs. ''Environ Epigenet''. 2016; '''2''' (1):
A Polyglot Approach to Bioinformatics Data Integration: A Phylogenetic Analysis of HIV-1. Description: Reisman, Steven, et al. A Polyglot Approach to Bioinformatics Data Integration: A Phylogenetic Analysis of HIV-1. ''Evol Bioinform Online''. 2016; '''12''': 23-7
Application of unmanned aerial systems for high throughput phenotyping of large wheat breeding nurseries. Description: Haghighattalab, Atena, et al. Application of unmanned aerial systems for high throughput phenotyping of large wheat breeding nurseries. ''Plant Methods''. 2016; '''12''': 35
A transgenerational role of the germline nuclear RNAi pathway in repressing heat stress-induced transcriptional activation in C. elegans. Description: Ni, Julie Zhouli, et al. A transgenerational role of the germline nuclear RNAi pathway in repressing heat stress-induced transcriptional activation in C. elegans. ''Epigenetics Chromatin''. 2016; '''9''': 3
Autism Linked to Increased Oncogene Mutations but Decreased Cancer Rate. Description: Darbro, Benjamin W, et al. Autism Linked to Increased Oncogene Mutations but Decreased Cancer Rate. ''PLoS One''. 2016; '''11''' (3):e0149041
Benchmarking Spike-Based Visual Recognition: A Dataset and Evaluation. Description: Liu, Qian, et al. Benchmarking Spike-Based Visual Recognition: A Dataset and Evaluation. ''Front Neurosci''. 2016; '''10''': 496
Better Than Nothing? Limitations of the Prediction Tool SecretomeP in the Search for Leaderless Secretory Proteins (LSPs) in Plants. Description: Lonsdale, Andrew, et al. Better Than Nothing? Limitations of the Prediction Tool SecretomeP in the Search for Leaderless Secretory Proteins (LSPs) in Plants. ''Front Plant Sci''. 2016; '''7''': 1451
Bibliometrics for Social Validation. Description: Hicks, Daniel J. Bibliometrics for Social Validation. ''PLoS One''. 2016; '''11''' (12):e0168597
Bidirectional Promoter Engineering for Single Cell MicroRNA Sensors in Embryonic Stem Cells. Description: Sladitschek, Hanna L, et al. Bidirectional Promoter Engineering for Single Cell MicroRNA Sensors in Embryonic Stem Cells. ''PLoS One''. 2016; '''11''' (5):e0155177
BioTriangle: a web-accessible platform for generating various molecular representations for chemicals, proteins, DNAs/RNAs and their interactions. Description: Dong, Jie, et al. BioTriangle: a web-accessible platform for generating various molecular representations for chemicals, proteins, DNAs/RNAs and their interactions. ''J Cheminform''. 2016; '''8''': 34
CANTATAdb: A Collection of Plant Long Non-Coding RNAs. Description: Szczesniak, Michal W, et al. CANTATAdb: A Collection of Plant Long Non-Coding RNAs. ''Plant Cell Physiol''. 2016 Jan; '''57''' (1):e8
Comorbidity Analysis According to Sex and Age in Hypertension Patients in China. Description: Liu, Jiaqi, et al. Comorbidity Analysis According to Sex and Age in Hypertension Patients in China. ''Int J Med Sci''. 2016; '''13''' (2):99-107
Contributions of Subsurface Cortical Modulations to Discrimination of Executed and Imagined Grasp Forces through Stereoelectroencephalography. Description: Murphy, Brian A, et al. Contributions of Subsurface Cortical Modulations to Discrimination of Executed and Imagined Grasp Forces through Stereoelectroencephalography. ''PLoS One''. 2016; '''11''' (3):e0150359
Discovery and Characterization of a Thermostable and Highly Halotolerant GH5 Cellulase from an Icelandic Hot Spring Isolate. Description: Zarafeta, Dimitra, et al. Discovery and Characterization of a Thermostable and Highly Halotolerant GH5 Cellulase from an Icelandic Hot Spring Isolate. ''PLoS One''. 2016; '''11''' (1):e0146454
DNA barcode data accurately assign higher spider taxa. Description: Coddington, Jonathan A, et al. DNA barcode data accurately assign higher spider taxa. ''PeerJ''. 2016; '''4''': e2201
EasyCloneMulti: A Set of Vectors for Simultaneous and Multiple Genomic Integrations in Saccharomyces cerevisiae. Description: Maury, Jerome, et al. EasyCloneMulti: A Set of Vectors for Simultaneous and Multiple Genomic Integrations in Saccharomyces cerevisiae. ''PLoS One''. 2016; '''11''' (3):e0150394
Effects of Diets Supplemented with Ensiled Mulberry Leaves and Sun-Dried Mulberry Fruit Pomace on the Ruminal Bacterial and Archaeal Community Composition of Finishing Steers. Description: Niu, Yuhong, et al. Effects of Diets Supplemented with Ensiled Mulberry Leaves and Sun-Dried Mulberry Fruit Pomace on the Ruminal Bacterial and Archaeal Community Composition of Finishing Steers. ''PLoS One''. 2016; '''11''' (6):e0156836
Electrical Responses and Spontaneous Activity of Human iPS-Derived Neuronal Networks Characterized for 3-month Culture with 4096-Electrode Arrays. Description: Amin, Hayder, et al. Electrical Responses and Spontaneous Activity of Human iPS-Derived Neuronal Networks Characterized for 3-month Culture with 4096-Electrode Arrays. ''Front Neurosci''. 2016; '''10''': 121
Faecal Metaproteomic Analysis Reveals a Personalized and Stable Functional Microbiome and Limited Effects of a Probiotic Intervention in Adults. Description: Kolmeder, Carolin A, et al. Faecal Metaproteomic Analysis Reveals a Personalized and Stable Functional Microbiome and Limited Effects of a Probiotic Intervention in Adults. ''PLoS One''. 2016; '''11''' (4):e0153294
GeneBase 1.1: a tool to summarize data from NCBI gene datasets and its application to an update of human gene statistics. Description: Piovesan, Allison, et al. GeneBase 1.1: a tool to summarize data from NCBI gene datasets and its application to an update of human gene statistics. ''Database (Oxford)''. 2016; '''2016''':
Genomic and Genetic Diversity within the Pseudomonas fluorescens Complex. Description: Garrido-Sanz, Daniel, et al. Genomic and Genetic Diversity within the Pseudomonas fluorescens Complex. ''PLoS One''. 2016; '''11''' (2):e0150183
Identification of Differentially Expressed microRNAs between the Fenpropathrin Resistant and Susceptible Strains in Tetranychus cinnabarinus. Description: Zhang, Yichao, et al. Identification of Differentially Expressed microRNAs between the Fenpropathrin Resistant and Susceptible Strains in Tetranychus cinnabarinus. ''PLoS One''. 2016; '''11''' (4):e0152924
Identification of Immune-Related Genes and Development of SSR/SNP Markers from the Spleen Transcriptome of Schizothorax prenanti. Description: Luo, Hui, et al. Identification of Immune-Related Genes and Development of SSR/SNP Markers from the Spleen Transcriptome of Schizothorax prenanti. ''PLoS One''. 2016; '''11''' (3):e0152572
Improvement of ENU Mutagenesis Efficiency Using Serial Injection and Mismatch Repair Deficiency Mice. Description: Gallego-Llamas, Jabier, et al. Improvement of ENU Mutagenesis Efficiency Using Serial Injection and Mismatch Repair Deficiency Mice. ''PLoS One''. 2016; '''11''' (7):e0159377
Intraclonal Genome Stability of the Metallo-beta-lactamase SPM-1-producing Pseudomonas aeruginosa ST277, an Endemic Clone Disseminated in Brazilian Hospitals. Description: Nascimento, Ana P B, et al. Intraclonal Genome Stability of the Metallo-beta-lactamase SPM-1-producing Pseudomonas aeruginosa ST277, an Endemic Clone Disseminated in Brazilian Hospitals. ''Front Microbiol''. 2016; '''7''': 1946
Jump into a New Fold-A Homology Based Model for the ABCG2/BCRP Multidrug Transporter. Description: Laszlo, Laura, et al. Jump into a New Fold-A Homology Based Model for the ABCG2/BCRP Multidrug Transporter. ''PLoS One''. 2016; '''11''' (10):e0164426
Keeping the Beat: A Large Sample Study of Bouncing and Clapping to Music. Description: Tranchant, Pauline, et al. Keeping the Beat: A Large Sample Study of Bouncing and Clapping to Music. ''PLoS One''. 2016; '''11''' (7):e0160178
Kingdom-Wide Analysis of Fungal Small Secreted Proteins (SSPs) Reveals their Potential Role in Host Association. Description: Kim, Ki-Tae, et al. Kingdom-Wide Analysis of Fungal Small Secreted Proteins (SSPs) Reveals their Potential Role in Host Association. ''Front Plant Sci''. 2016; '''7''': 186
lncRNA-RNA Interactions across the Human Transcriptome. Description: Szczesniak, Michal Wojciech, et al. lncRNA-RNA Interactions across the Human Transcriptome. ''PLoS One''. 2016; '''11''' (3):e0150353
Microbial Community Responses to Increased Water and Organic Matter in the Arid Soils of the McMurdo Dry Valleys, Antarctica. Description: Buelow, Heather N, et al. Microbial Community Responses to Increased Water and Organic Matter in the Arid Soils of the McMurdo Dry Valleys, Antarctica. ''Front Microbiol''. 2016; '''7''': 1040
Mixed Nodule Infection in Sinorhizobium meliloti-Medicago sativa Symbiosis Suggest the Presence of Cheating Behavior. Description: Checcucci, Alice, et al. Mixed Nodule Infection in Sinorhizobium meliloti-Medicago sativa Symbiosis Suggest the Presence of Cheating Behavior. ''Front Plant Sci''. 2016; '''7''': 835
Monitoring Perinatal Gut Microbiota in Mouse Models by Mass Spectrometry Approaches: Parental Genetic Background and Breastfeeding Effects. Description: Levi Mortera, Stefano, et al. Monitoring Perinatal Gut Microbiota in Mouse Models by Mass Spectrometry Approaches: Parental Genetic Background and Breastfeeding Effects. ''Front Microbiol''. 2016; '''7''': 1523
Natural Allelic Variations in Highly Polyploidy Saccharum Complex. Description: Song, Jian, et al. Natural Allelic Variations in Highly Polyploidy Saccharum Complex. ''Front Plant Sci''. 2016; '''7''': 804
Non-canonical Helitrons in Fusarium oxysporum. Description: Chellapan, Biju Vadakkemukadiyil, et al. Non-canonical Helitrons in Fusarium oxysporum. ''Mob DNA''. 2016; '''7''': 27
Novel Virophages Discovered in a Freshwater Lake in China. Description: Gong, Chaowen, et al. Novel Virophages Discovered in a Freshwater Lake in China. ''Front Microbiol''. 2016; '''7''': 5
On Nature's Strategy for Assigning Genetic Code Multiplicity. Description: Gardini, Simone, et al. On Nature's Strategy for Assigning Genetic Code Multiplicity. ''PLoS One''. 2016; '''11''' (2):e0148174
Preliminary Experiments on Human Sensitivity to Rhythmic Structure in a Grammar with Recursive Self-Similarity. Description: Geambasu, Andreea, et al. Preliminary Experiments on Human Sensitivity to Rhythmic Structure in a Grammar with Recursive Self-Similarity. ''Front Neurosci''. 2016; '''10''': 281
Pseudomonas fluorescens F113 Can Produce a Second Flagellar Apparatus, Which Is Important for Plant Root Colonization. Description: Barahona, Emma, et al. Pseudomonas fluorescens F113 Can Produce a Second Flagellar Apparatus, Which Is Important for Plant Root Colonization. ''Front Microbiol''. 2016; '''7''': 1471
Respiration Gates Sensory Input Responses in the Mitral Cell Layer of the Olfactory Bulb. Description: Short, Shaina M, et al. Respiration Gates Sensory Input Responses in the Mitral Cell Layer of the Olfactory Bulb. ''PLoS One''. 2016; '''11''' (12):e0168356
RNA-Seq Based Analysis of Population Structure within the Maize Inbred B73. Description: Liang, Zhikai, et al. RNA-Seq Based Analysis of Population Structure within the Maize Inbred B73. ''PLoS One''. 2016; '''11''' (6):e0157942
ScaleNet: a literature-based model of scale insect biology and systematics. Description: Garcia Morales, Mayrolin, et al. ScaleNet: a literature-based model of scale insect biology and systematics. ''Database (Oxford)''. 2016; '''2016''':
SigmoID: a user-friendly tool for improving bacterial genome annotation through analysis of transcription control signals. Description: Nikolaichik, Yevgeny, et al. SigmoID: a user-friendly tool for improving bacterial genome annotation through analysis of transcription control signals. ''PeerJ''. 2016; '''4''': e2056
Species From Feces: Order-Wide Identification of Chiroptera From Guano and Other Non-Invasive Genetic Samples. Description: Walker, Faith M, et al. Species From Feces: Order-Wide Identification of Chiroptera From Guano and Other Non-Invasive Genetic Samples. ''PLoS One''. 2016; '''11''' (9):e0162342
Sphingomonas wittichii Strain RW1 Genome-Wide Gene Expression Shifts in Response to Dioxins and Clay. Description: Chai, Benli, et al. Sphingomonas wittichii Strain RW1 Genome-Wide Gene Expression Shifts in Response to Dioxins and Clay. ''PLoS One''. 2016; '''11''' (6):e0157008
Survey of Genes Involved in Biosynthesis, Transport, and Signaling of Phytohormones with Focus on Solanum lycopersicum. Description: Simm, Stefan, et al. Survey of Genes Involved in Biosynthesis, Transport, and Signaling of Phytohormones with Focus on Solanum lycopersicum. ''Bioinform Biol Insights''. 2016; '''10''': 185-207
The Antsy Social Network: Determinants of Nest Structure and Arrangement in Asian Weaver Ants. Description: Devarajan, Kadambari. The Antsy Social Network: Determinants of Nest Structure and Arrangement in Asian Weaver Ants. ''PLoS One''. 2016; '''11''' (6):e0156681
The complex genetic and molecular basis of a model quantitative trait. Description: Linder, Robert A, et al. The complex genetic and molecular basis of a model quantitative trait. ''Mol Biol Cell''. 2016 Jan 1; '''27''' (1):209-18
The Development of White-Asian Categorization: Contributions from Skin Color and Other Physiognomic Cues. Description: Dunham, Yarrow, et al. The Development of White-Asian Categorization: Contributions from Skin Color and Other Physiognomic Cues. ''PLoS One''. 2016; '''11''' (6):e0158211
The Exposed Proteomes of Brachyspira hyodysenteriae and B. pilosicoli. Description: Casas, Vanessa, et al. The Exposed Proteomes of Brachyspira hyodysenteriae and B. pilosicoli. ''Front Microbiol''. 2016; '''7''': 1103
The impact of library preparation protocols on the consistency of allele frequency estimates in Pool-Seq data. Description: Kofler, Robert, et al. The impact of library preparation protocols on the consistency of allele frequency estimates in Pool-Seq data. ''Mol Ecol Resour''. 2016 Jan; '''16''' (1):118-22
The Mutational Landscape of the Oncogenic MZF1 SCAN Domain in Cancer. Description: Nygaard, Mads, et al. The Mutational Landscape of the Oncogenic MZF1 SCAN Domain in Cancer. ''Front Mol Biosci''. 2016; '''3''': 78
The Verrucomicrobia LexA-Binding Motif: Insights into the Evolutionary Dynamics of the SOS Response. Description: Erill, Ivan, et al. The Verrucomicrobia LexA-Binding Motif: Insights into the Evolutionary Dynamics of the SOS Response. ''Front Mol Biosci''. 2016; '''3''': 33
A multi-factorial analysis of response to warfarin in a UK prospective cohort. Description: Bourgeois, Stephane, et al. A multi-factorial analysis of response to warfarin in a UK prospective cohort. ''Genome Med''. 2016 Jan 6; '''8''' (1):2
CHARMM-GUI Input Generator for NAMD, GROMACS, AMBER, OpenMM, and CHARMM/OpenMM Simulations Using the CHARMM36 Additive Force Field. Description: Lee, Jumin, et al. CHARMM-GUI Input Generator for NAMD, GROMACS, AMBER, OpenMM, and CHARMM/OpenMM Simulations Using the CHARMM36 Additive Force Field. ''J Chem Theory Comput''. 2016 Jan 12; '''12''' (1):405-13
Structural basis of RNA recognition and dimerization by the STAR proteins T-STAR and Sam68. Description: Feracci, Mikael, et al. Structural basis of RNA recognition and dimerization by the STAR proteins T-STAR and Sam68. ''Nat Commun''. 2016 Jan 13; '''7''': 10355
RNA sequencing-based analysis of the spleen transcriptome following infectious bronchitis virus infection of chickens selected for different mannose-binding lectin serum concentrations. Description: Hamzic, Edin, et al. RNA sequencing-based analysis of the spleen transcriptome following infectious bronchitis virus infection of chickens selected for different mannose-binding lectin serum concentrations. ''BMC Genomics''. 2016 Jan 27; '''17''': 82
Conservation and divergence of the cyclic adenosine monophosphate-protein kinase A (cAMP-PKA) pathway in two plant-pathogenic fungi: Fusarium graminearum and F. verticillioides. Description: Guo, Li, et al. Conservation and divergence of the cyclic adenosine monophosphate-protein kinase A (cAMP-PKA) pathway in two plant-pathogenic fungi: Fusarium graminearum and F. verticillioides. ''Mol Plant Pathol''. 2016 Feb; '''17''' (2):196-209
Genomic Characterization of a South American Phytophthora Hybrid Mandates Reassessment of the Geographic Origins of Phytophthora infestans. Description: Martin, Michael D, et al. Genomic Characterization of a South American Phytophthora Hybrid Mandates Reassessment of the Geographic Origins of Phytophthora infestans. ''Mol Biol Evol''. 2016 Feb; '''33''' (2):478-91
Informing phenomenological structural bone remodelling with a mechanistic poroelastic model. Description: Villette, Claire C, et al. Informing phenomenological structural bone remodelling with a mechanistic poroelastic model. ''Biomech Model Mechanobiol''. 2016 Feb; '''15''' (1):69-82
Phylogenomics Reveals Three Sources of Adaptive Variation during a Rapid Radiation. Description: Pease, James B, et al. Phylogenomics Reveals Three Sources of Adaptive Variation during a Rapid Radiation. ''PLoS Biol''. 2016 Feb; '''14''' (2):e1002379
WARACS: Wrappers to Automate the Reconstruction of Ancestral Character States. Description: Gruenstaeudl, Michael. WARACS: Wrappers to Automate the Reconstruction of Ancestral Character States. ''Appl Plant Sci''. 2016 Feb; '''4''' (2):
Joint mouse-human phenome-wide association to test gene function and disease risk. Description: Wang, Xusheng, et al. Joint mouse-human phenome-wide association to test gene function and disease risk. ''Nat Commun''. 2016 Feb 2; '''7''': 10464
Contrasting Patterns of Evolutionary Diversification in the Olfactory Repertoires of Reptile and Bird Genomes. Description: Vandewege, Michael W, et al. Contrasting Patterns of Evolutionary Diversification in the Olfactory Repertoires of Reptile and Bird Genomes. ''Genome Biol Evol''. 2016 Feb 9; '''8''' (3):470-80
Real-time, portable genome sequencing for Ebola surveillance. Description: Quick, Joshua, et al. Real-time, portable genome sequencing for Ebola surveillance. ''Nature''. 2016 Feb 11; '''530''' (7589):228-232
Evolutionary Changes on the Way to Clathrin-Mediated Endocytosis in Animals. Description: Dergai, Mykola, et al. Evolutionary Changes on the Way to Clathrin-Mediated Endocytosis in Animals. ''Genome Biol Evol''. 2016 Feb 12; '''8''' (3):588-606
Transcriptome wide analyses reveal a sustained cellular stress response in the gill tissue of Trematomus bernacchii after acclimation to multiple stressors. Description: Huth, Troy J, et al. Transcriptome wide analyses reveal a sustained cellular stress response in the gill tissue of Trematomus bernacchii after acclimation to multiple stressors. ''BMC Genomics''. 2016 Feb 20; '''17''': 127
Comparative genome analysis and genome evolution of members of the magnaporthaceae family of fungi. Description: Okagaki, Laura H, et al. Comparative genome analysis and genome evolution of members of the magnaporthaceae family of fungi. ''BMC Genomics''. 2016 Feb 25; '''17''': 135
1001 Ways to run AutoDock Vina for virtual screening. Description: Jaghoori, Mohammad Mahdi, et al. 1001 Ways to run AutoDock Vina for virtual screening. ''J Comput Aided Mol Des''. 2016 Mar; '''30''' (3):237-49
7SK-BAF axis controls pervasive transcription at enhancers. Description: Flynn, Ryan A, et al. 7SK-BAF axis controls pervasive transcription at enhancers. ''Nat Struct Mol Biol''. 2016 Mar; '''23''' (3):231-8
Bat Accelerated Regions Identify a Bat Forelimb Specific Enhancer in the HoxD Locus. Description: Booker, Betty M, et al. Bat Accelerated Regions Identify a Bat Forelimb Specific Enhancer in the HoxD Locus. ''PLoS Genet''. 2016 Mar; '''12''' (3):e1005738
Optimization of next-generation sequencing transcriptome annotation for species lacking sequenced genomes. Description: Ockendon, Nina F, et al. Optimization of next-generation sequencing transcriptome annotation for species lacking sequenced genomes. ''Mol Ecol Resour''. 2016 Mar; '''16''' (2):446-58
Transforming Clinical Data into Actionable Prognosis Models: Machine-Learning Framework and Field-Deployable App to Predict Outcome of Ebola Patients. Description: Colubri, Andres, et al. Transforming Clinical Data into Actionable Prognosis Models: Machine-Learning Framework and Field-Deployable App to Predict Outcome of Ebola Patients. ''PLoS Negl Trop Dis''. 2016 Mar; '''10''' (3):e0004549
Evaluation of DISCOVAR de novo using a mosquito sample for cost-effective short-read genome assembly. Description: Love, R Rebecca, et al. Evaluation of DISCOVAR de novo using a mosquito sample for cost-effective short-read genome assembly. ''BMC Genomics''. 2016 Mar 5; '''17''': 187
Using self-drilling screws in volar plate osteosynthesis for distal radius fractures: a feasibility study. Description: Synek, Alexaner, et al. Using self-drilling screws in volar plate osteosynthesis for distal radius fractures: a feasibility study. ''BMC Musculoskelet Disord''. 2016 Mar 10; '''17''': 120
Gene-based SNP discovery in tepary bean (Phaseolus acutifolius) and common bean (P. vulgaris) for diversity analysis and comparative mapping. Description: Gujaria-Verma, Neha, et al. Gene-based SNP discovery in tepary bean (Phaseolus acutifolius) and common bean (P. vulgaris) for diversity analysis and comparative mapping. ''BMC Genomics''. 2016 Mar 15; '''17''': 239
A glucose-starvation response regulates the diffusion of macromolecules. Description: Joyner, Ryan P, et al. A glucose-starvation response regulates the diffusion of macromolecules. ''Elife''. 2016 Mar 22; '''5''':
Reconstructing the complex evolutionary history of mobile plasmids in red algal genomes. Description: Lee, JunMo, et al. Reconstructing the complex evolutionary history of mobile plasmids in red algal genomes. ''Sci Rep''. 2016 Mar 31; '''6''': 23744
Genetic variation in bitter taste receptor genes influences the foraging behavior of plateau zokor (Eospalax baileyi). Description: Zhao, Fang, et al. Genetic variation in bitter taste receptor genes influences the foraging behavior of plateau zokor (Eospalax baileyi). ''Ecol Evol''. 2016 Apr; '''6''' (8):2359-67
T cell fate and clonality inference from single-cell transcriptomes. Description: Stubbington, Michael J T, et al. T cell fate and clonality inference from single-cell transcriptomes. ''Nat Methods''. 2016 Apr; '''13''' (4):329-332
Functional test of PCDHB11, the most human-specific neuronal surface protein. Description: de Freitas, Guilherme Braga, et al. Functional test of PCDHB11, the most human-specific neuronal surface protein. ''BMC Evol Biol''. 2016 Apr 12; '''16''': 75
Diverse Ecological Strategies Are Encoded by Streptococcus pneumoniae Bacteriocin-Like Peptides. Description: Miller, Eric L, et al. Diverse Ecological Strategies Are Encoded by Streptococcus pneumoniae Bacteriocin-Like Peptides. ''Genome Biol Evol''. 2016 Apr 13; '''8''' (4):1072-90
C9orf72 is differentially expressed in the central nervous system and myeloid cells and consistently reduced in C9orf72, MAPT and GRN mutation carriers. Description: Rizzu, Patrizia, et al. C9orf72 is differentially expressed in the central nervous system and myeloid cells and consistently reduced in C9orf72, MAPT and GRN mutation carriers. ''Acta Neuropathol Commun''. 2016 Apr 14; '''4''' (1):37
Divergence of RNA polymerase alpha subunits in angiosperm plastid genomes is mediated by genomic rearrangement. Description: Blazier, J Chris, et al. Divergence of RNA polymerase alpha subunits in angiosperm plastid genomes is mediated by genomic rearrangement. ''Sci Rep''. 2016 Apr 18; '''6''': 24595
Bacterial communities in penile skin, male urethra, and vaginas of heterosexual couples with and without bacterial vaginosis. Description: Zozaya, Marcela, et al. Bacterial communities in penile skin, male urethra, and vaginas of heterosexual couples with and without bacterial vaginosis. ''Microbiome''. 2016 Apr 19; '''4''': 16
Hunting for hydrogen: random structure searching and prediction of NMR parameters of hydrous wadsleyite. Description: Moran, Robert F, et al. Hunting for hydrogen: random structure searching and prediction of NMR parameters of hydrous wadsleyite. ''Phys Chem Chem Phys''. 2016 Apr 21; '''18''' (15):10173-81
The ribosomal protein Asc1/RACK1 is required for efficient translation of short mRNAs. Description: Thompson, Mary K, et al. The ribosomal protein Asc1/RACK1 is required for efficient translation of short mRNAs. ''Elife''. 2016 Apr 27; '''5''':
An Integrated Metabolomic and Genomic Mining Workflow To Uncover the Biosynthetic Potential of Bacteria. Description: Maansson, Maria, et al. An Integrated Metabolomic and Genomic Mining Workflow To Uncover the Biosynthetic Potential of Bacteria. ''mSystems''. 2016 May-Jun; '''1''' (3):
Ionic mechanisms maintaining action potential conduction velocity at high firing frequencies in an unmyelinated axon. Description: Cross, Kevin P, et al. Ionic mechanisms maintaining action potential conduction velocity at high firing frequencies in an unmyelinated axon. ''Physiol Rep''. 2016 May; '''4''' (10):
Parallel shRNA and CRISPR-Cas9 screens enable antiviral drug target identification. Description: Deans, Richard M, et al. Parallel shRNA and CRISPR-Cas9 screens enable antiviral drug target identification. ''Nat Chem Biol''. 2016 May; '''12''' (5):361-6
"Every Gene Is Everywhere but the Environment Selects": Global Geolocalization of Gene Sharing in Environmental Samples through Network Analysis. Description: Fondi, Marco, et al. "Every Gene Is Everywhere but the Environment Selects": Global Geolocalization of Gene Sharing in Environmental Samples through Network Analysis. ''Genome Biol Evol''. 2016 May 13; '''8''' (5):1388-400
Conservation of uORF repressiveness and sequence features in mouse, human and zebrafish. Description: Chew, Guo-Liang, et al. Conservation of uORF repressiveness and sequence features in mouse, human and zebrafish. ''Nat Commun''. 2016 May 24; '''7''': 11663
Dietary breadth is positively correlated with venom complexity in cone snails. Description: Phuong, Mark A, et al. Dietary breadth is positively correlated with venom complexity in cone snails. ''BMC Genomics''. 2016 May 26; '''17''': 401
Rare intronic variants of TCF7L2 arising by selective sweeps in an indigenous population from Mexico. Description: Acosta, Jose Luis, et al. Rare intronic variants of TCF7L2 arising by selective sweeps in an indigenous population from Mexico. ''BMC Genet''. 2016 May 26; '''17''' (1):68
Conservation in Mammals of Genes Associated with Aggression-Related Behavioral Phenotypes in Honey Bees. Description: Liu, Hui, et al. Conservation in Mammals of Genes Associated with Aggression-Related Behavioral Phenotypes in Honey Bees. ''PLoS Comput Biol''. 2016 Jun; '''12''' (6):e1004921
Diverse genetic architectures lead to the same cryptic phenotype in a yeast cross. Description: Taylor, Matthew B, et al. Diverse genetic architectures lead to the same cryptic phenotype in a yeast cross. ''Nat Commun''. 2016 Jun 1; '''7''': 11669
Genome-wide view of genetic diversity reveals paths of selection and cultivar differentiation in peach domestication. Description: Akagi, Takashi, et al. Genome-wide view of genetic diversity reveals paths of selection and cultivar differentiation in peach domestication. ''DNA Res''. 2016 Jun; '''23''' (3):271-82
Measuring patient-perceived quality of care in US hospitals using Twitter. Description: Hawkins, Jared B, et al. Measuring patient-perceived quality of care in US hospitals using Twitter. ''BMJ Qual Saf''. 2016 Jun; '''25''' (6):404-13
Systematic comparison of CRISPR/Cas9 and RNAi screens for essential genes. Description: Morgens, David W, et al. Systematic comparison of CRISPR/Cas9 and RNAi screens for essential genes. ''Nat Biotechnol''. 2016 Jun; '''34''' (6):634-6
Territorial raven pairs are sensitive to structural changes in simulated acoustic displays of conspecifics. Description: Reber, Stephan A, et al. Territorial raven pairs are sensitive to structural changes in simulated acoustic displays of conspecifics. ''Anim Behav''. 2016 Jun; '''116''': 153-162
Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles. Description: Castanera, Raul, et al. Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles. ''PLoS Genet''. 2016 Jun; '''12''' (6):e1006108
Annexin A5 is the Most Abundant Membrane-Associated Protein in Stereocilia but is Dispensable for Hair-Bundle Development and Function. Description: Krey, Jocelyn F, et al. Annexin A5 is the Most Abundant Membrane-Associated Protein in Stereocilia but is Dispensable for Hair-Bundle Development and Function. ''Sci Rep''. 2016 Jun 2; '''6''': 27221
RiboFR-Seq: a novel approach to linking 16S rRNA amplicon profiles to metagenomes. Description: Zhang, Yanming, et al. RiboFR-Seq: a novel approach to linking 16S rRNA amplicon profiles to metagenomes. ''Nucleic Acids Res''. 2016 Jun 2; '''44''' (10):e99
Ribosome hibernation factor promotes Staphylococcal survival and differentially represses translation. Description: Basu, Arnab, et al. Ribosome hibernation factor promotes Staphylococcal survival and differentially represses translation. ''Nucleic Acids Res''. 2016 Jun 2; '''44''' (10):4881-93
MDSINE: Microbial Dynamical Systems INference Engine for microbiome time-series analyses. Description: Bucci, Vanni, et al. MDSINE: Microbial Dynamical Systems INference Engine for microbiome time-series analyses. ''Genome Biol''. 2016 Jun 3; '''17''' (1):121
Comprehensive promoter level expression quantitative trait loci analysis of the human frontal lobe. Description: Blauwendraat, Cornelis, et al. Comprehensive promoter level expression quantitative trait loci analysis of the human frontal lobe. ''Genome Med''. 2016 Jun 10; '''8''' (1):65
Systematic reanalysis of partial trisomy 21 cases with or without Down syndrome suggests a small region on 21q22.13 as critical to the phenotype. Description: Pelleri, Maria Chiara, et al. Systematic reanalysis of partial trisomy 21 cases with or without Down syndrome suggests a small region on 21q22.13 as critical to the phenotype. ''Hum Mol Genet''. 2016 Jun 15; '''25''' (12):2525-2538
Proteome-wide covalent ligand discovery in native biological systems. Description: Backus, Keriann M, et al. Proteome-wide covalent ligand discovery in native biological systems. ''Nature''. 2016 Jun 23; '''534''' (7608):570-4
Alterations of the human gut microbiome in multiple sclerosis. Description: Jangi, Sushrut, et al. Alterations of the human gut microbiome in multiple sclerosis. ''Nat Commun''. 2016 Jun 28; '''7''': 12015
NMR Characterization of Information Flow and Allosteric Communities in the MAP Kinase p38gamma. Description: Aoto, Phillip C, et al. NMR Characterization of Information Flow and Allosteric Communities in the MAP Kinase p38gamma. ''Sci Rep''. 2016 Jun 29; '''6''': 28655
Compartmentalized gene regulatory network of the pathogenic fungus Fusarium graminearum. Description: Guo, Li, et al. Compartmentalized gene regulatory network of the pathogenic fungus Fusarium graminearum. ''New Phytol''. 2016 Jul; '''211''' (2):527-41
Possum-A Framework for Three-Dimensional Reconstruction of Brain Images from Serial Sections. Description: Majka, Piotr, et al. Possum-A Framework for Three-Dimensional Reconstruction of Brain Images from Serial Sections. ''Neuroinformatics''. 2016 Jul; '''14''' (3):265-78
Transcriptomes of Plant Gametophytes Have a Higher Proportion of Rapidly Evolving and Young Genes than Sporophytes. Description: Gossmann, Toni I, et al. Transcriptomes of Plant Gametophytes Have a Higher Proportion of Rapidly Evolving and Young Genes than Sporophytes. ''Mol Biol Evol''. 2016 Jul; '''33''' (7):1669-78
Constitutive turnover of histone H2A.Z at yeast promoters requires the preinitiation complex. Description: Tramantano, Michael, et al. Constitutive turnover of histone H2A.Z at yeast promoters requires the preinitiation complex. ''Elife''. 2016 Jul 20; '''5''':
A novel, rapid method to compare the therapeutic windows of oral anticoagulants using the Hill coefficient. Description: Chang, Jeremy B, et al. A novel, rapid method to compare the therapeutic windows of oral anticoagulants using the Hill coefficient. ''Sci Rep''. 2016 Jul 21; '''6''': 29387
Mapping DNA polymerase errors by single-molecule sequencing. Description: Lee, David F, et al. Mapping DNA polymerase errors by single-molecule sequencing. ''Nucleic Acids Res''. 2016 Jul 27; '''44''' (13):e118
Genomic analysis of local variation and recent evolution in Plasmodium vivax. Description: Pearson, Richard D, et al. Genomic analysis of local variation and recent evolution in Plasmodium vivax. ''Nat Genet''. 2016 Aug; '''48''' (8):959-964
The Mutational Robustness of Influenza A Virus. Description: Visher, Elisa, et al. The Mutational Robustness of Influenza A Virus. ''PLoS Pathog''. 2016 Aug; '''12''' (8):e1005856
A proteomics approach reveals molecular manipulators of distinct cellular processes in the salivary glands of Glossina m. morsitans in response to Trypanosoma b. brucei infections. Description: Kariithi, Henry M, et al. A proteomics approach reveals molecular manipulators of distinct cellular processes in the salivary glands of Glossina m. morsitans in response to Trypanosoma b. brucei infections. ''Parasit Vectors''. 2016 Aug 2; '''9''' (1):424
Comprehensive Identification of Meningococcal Genes and Small Noncoding RNAs Required for Host Cell Colonization. Description: Capel, Elena, et al. Comprehensive Identification of Meningococcal Genes and Small Noncoding RNAs Required for Host Cell Colonization. ''mBio''. 2016 Aug 2; '''7''' (4):
Complete mitochondrial genomes of four entomopathogenic nematode species of the genus Steinernema. Description: Kikuchi, Taisei, et al. Complete mitochondrial genomes of four entomopathogenic nematode species of the genus Steinernema. ''Parasit Vectors''. 2016 Aug 5; '''9''' (1):430
Comparative transcriptome profiling of resistant and susceptible rice genotypes in response to the seedborne pathogen Fusarium fujikuroi. Description: Matic, Slavica, et al. Comparative transcriptome profiling of resistant and susceptible rice genotypes in response to the seedborne pathogen Fusarium fujikuroi. ''BMC Genomics''. 2016 Aug 11; '''17''' (1):608
Genome analysis and avirulence gene cloning using a high-density RADseq linkage map of the flax rust fungus, Melampsora lini. Description: Anderson, Claire, et al. Genome analysis and avirulence gene cloning using a high-density RADseq linkage map of the flax rust fungus, Melampsora lini. ''BMC Genomics''. 2016 Aug 22; '''17''': 667
Tissue-Specific Venom Composition and Differential Gene Expression in Sea Anemones. Description: Macrander, Jason, et al. Tissue-Specific Venom Composition and Differential Gene Expression in Sea Anemones. ''Genome Biol Evol''. 2016 Aug 25; '''8''' (8):2358-75
Automated optogenetic feedback control for precise and robust regulation of gene expression and cell growth. Description: Milias-Argeitis, Andreas, et al. Automated optogenetic feedback control for precise and robust regulation of gene expression and cell growth. ''Nat Commun''. 2016 Aug 26; '''7''': 12546
Assessment of transfer methods for comparative genomics of regulatory networks in bacteria. Description: Kilic, Sefa, et al. Assessment of transfer methods for comparative genomics of regulatory networks in bacteria. ''BMC Bioinformatics''. 2016 Aug 31; '''17 Suppl 8''': 277
Fumarate is an epigenetic modifier that elicits epithelial-to-mesenchymal transition. Description: Sciacovelli, Marco, et al. Fumarate is an epigenetic modifier that elicits epithelial-to-mesenchymal transition. ''Nature''. 2016 Aug 31; '''537''' (7621):544-547
EIGER detector: application in macromolecular crystallography. Description: Casanas, Arnau, et al. EIGER detector: application in macromolecular crystallography. ''Acta Crystallogr D Struct Biol''. 2016 Sep; '''72''' (Pt 9):1036-48
Immersed Boundary Models for Quantifying Flow-Induced Mechanical Stimuli on Stem Cells Seeded on 3D Scaffolds in Perfusion Bioreactors. Description: Guyot, Yann, et al. Immersed Boundary Models for Quantifying Flow-Induced Mechanical Stimuli on Stem Cells Seeded on 3D Scaffolds in Perfusion Bioreactors. ''PLoS Comput Biol''. 2016 Sep; '''12''' (9):e1005108
Isolation and complete genome sequencing of Mimivirus bombay, a Giant Virus in sewage of Mumbai, India. Description: Chatterjee, Anirvan, et al. Isolation and complete genome sequencing of Mimivirus bombay, a Giant Virus in sewage of Mumbai, India. ''Genom Data''. 2016 Sep; '''9''': 1-3
Temporal asymmetries in auditory coding and perception reflect multi-layered nonlinearities. Description: Deneux, Thomas, et al. Temporal asymmetries in auditory coding and perception reflect multi-layered nonlinearities. ''Nat Commun''. 2016 Sep 1; '''7''': 12682
Morphological and molecular convergences in mammalian phylogenetics. Description: Zou, Zhengting, et al. Morphological and molecular convergences in mammalian phylogenetics. ''Nat Commun''. 2016 Sep 2; '''7''': 12758
Parallel evolution of highly conserved plastid genome architecture in red seaweeds and seed plants. Description: Lee, JunMo, et al. Parallel evolution of highly conserved plastid genome architecture in red seaweeds and seed plants. ''BMC Biol''. 2016 Sep 2; '''14''': 75
Improving the performance of the PLB index for ligand-binding site prediction using dihedral angles and the solvent-accessible surface area. Description: Cao, Chen, et al. Improving the performance of the PLB index for ligand-binding site prediction using dihedral angles and the solvent-accessible surface area. ''Sci Rep''. 2016 Sep 13; '''6''': 33232
Extension of the classical classification of beta-turns. Description: de Brevern, Alexandre G. Extension of the classical classification of beta-turns. ''Sci Rep''. 2016 Sep 15; '''6''': 33191
Phase Composition and Disorder in La2(Sn,Ti)2O7 Ceramics: New Insights from NMR Crystallography. Description: Fernandes, Arantxa, et al. Phase Composition and Disorder in La2(Sn,Ti)2O7 Ceramics: New Insights from NMR Crystallography. ''J Phys Chem C Nanomater Interfaces''. 2016 Sep 15; '''120''' (36):20288-20296
ZikaVR: An Integrated Zika Virus Resource for Genomics, Proteomics, Phylogenetic and Therapeutic Analysis. Description: Gupta, Amit Kumar, et al. ZikaVR: An Integrated Zika Virus Resource for Genomics, Proteomics, Phylogenetic and Therapeutic Analysis. ''Sci Rep''. 2016 Sep 16; '''6''': 32713
Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation. Description: Horlbeck, Max A, et al. Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation. ''Elife''. 2016 Sep 23; '''5''':
De novo transcriptomic analysis of Chlorella sorokiniana reveals differential genes expression in photosynthetic carbon fixation and lipid production. Description: Li, Lin, et al. De novo transcriptomic analysis of Chlorella sorokiniana reveals differential genes expression in photosynthetic carbon fixation and lipid production. ''BMC Microbiol''. 2016 Sep 26; '''16''' (1):223
Confocal reference free traction force microscopy. Description: Bergert, Martin, et al. Confocal reference free traction force microscopy. ''Nat Commun''. 2016 Sep 29; '''7''': 12814
Combination of Whole Genome Sequencing, Linkage, and Functional Studies Implicates a Missense Mutation in Titin as a Cause of Autosomal Dominant Cardiomyopathy With Features of Left Ventricular Noncompaction. Description: Hastings, Robert, et al. Combination of Whole Genome Sequencing, Linkage, and Functional Studies Implicates a Missense Mutation in Titin as a Cause of Autosomal Dominant Cardiomyopathy With Features of Left Ventricular Noncompaction. ''Circ Cardiovasc Genet''. 2016 Oct; '''9''' (5):426-435
Loss of genetic diversity as a consequence of selection in response to high pCO2. Description: Lloyd, Melanie M, et al. Loss of genetic diversity as a consequence of selection in response to high pCO2. ''Evol Appl''. 2016 Oct; '''9''' (9):1124-1132
Robotic QM/MM-driven maturation of antibody combining sites. Description: Smirnov, Ivan V, et al. Robotic QM/MM-driven maturation of antibody combining sites. ''Sci Adv''. 2016 Oct; '''2''' (10):e1501695
Eco-HAB as a fully automated and ecologically relevant assessment of social impairments in mouse models of autism. Description: Puscian, Alicja, et al. Eco-HAB as a fully automated and ecologically relevant assessment of social impairments in mouse models of autism. ''Elife''. 2016 Oct 12; '''5''':
Head Transcriptomes of Two Closely Related Species of Fruit Flies of the Anastrepha fraterculus Group Reveals Divergent Genes in Species with Extensive Gene Flow. Description: Rezende, Victor Borges, et al. Head Transcriptomes of Two Closely Related Species of Fruit Flies of the Anastrepha fraterculus Group Reveals Divergent Genes in Species with Extensive Gene Flow. ''G3 (Bethesda)''. 2016 Oct 13; '''6''' (10):3283-3295
Real-time monitoring of the sugar sensing in Saccharomyces cerevisiae indicates endogenous mechanisms for xylose signaling. Description: Brink, Daniel P, et al. Real-time monitoring of the sugar sensing in Saccharomyces cerevisiae indicates endogenous mechanisms for xylose signaling. ''Microb Cell Fact''. 2016 Oct 24; '''15''' (1):183
Evolutionary hallmarks of the human proteome: chasing the age and coregulation of protein-coding genes. Description: Lopes, Katia de Paiva, et al. Evolutionary hallmarks of the human proteome: chasing the age and coregulation of protein-coding genes. ''BMC Genomics''. 2016 Oct 25; '''17''' (Suppl 8):725
Complete Genome Sequence of the MRSA Isolate HC1335 from ST239 Lineage Displaying a Truncated AgrC Histidine Kinase Receptor. Description: Botelho, Ana M N, et al. Complete Genome Sequence of the MRSA Isolate HC1335 from ST239 Lineage Displaying a Truncated AgrC Histidine Kinase Receptor. ''Genome Biol Evol''. 2016 Oct 30; '''8''' (10):3187-3192
Transcription Factors Encoded on Core and Accessory Chromosomes of Fusarium oxysporum Induce Expression of Effector Genes. Description: van der Does, H Charlotte, et al. Transcription Factors Encoded on Core and Accessory Chromosomes of Fusarium oxysporum Induce Expression of Effector Genes. ''PLoS Genet''. 2016 Nov; '''12''' (11):e1006401
3-dimensional electron microscopic imaging of the zebrafish olfactory bulb and dense reconstruction of neurons. Description: Wanner, Adrian A, et al. 3-dimensional electron microscopic imaging of the zebrafish olfactory bulb and dense reconstruction of neurons. ''Sci Data''. 2016 Nov 8; '''3''': 160100
Suitability of Different Mapping Algorithms for Genome-Wide Polymorphism Scans with Pool-Seq Data. Description: Kofler, Robert, et al. Suitability of Different Mapping Algorithms for Genome-Wide Polymorphism Scans with Pool-Seq Data. ''G3 (Bethesda)''. 2016 Nov 8; '''6''' (11):3507-3515
Balancing selection shapes density-dependent foraging behaviour. Description: Greene, Joshua S, et al. Balancing selection shapes density-dependent foraging behaviour. ''Nature''. 2016 Nov 10; '''539''' (7628):254-258
Establishment and stability of the latent HIV-1 DNA reservoir. Description: Brodin, Johanna, et al. Establishment and stability of the latent HIV-1 DNA reservoir. ''Elife''. 2016 Nov 15; '''5''':
Synaptic transmission parallels neuromodulation in a central food-intake circuit. Description: Schlegel, Philipp, et al. Synaptic transmission parallels neuromodulation in a central food-intake circuit. ''Elife''. 2016 Nov 15; '''5''':
Binding properties of YjeQ (RsgA), RbfA, RimM and Era to assembly intermediates of the 30S subunit. Description: Thurlow, Brett, et al. Binding properties of YjeQ (RsgA), RbfA, RimM and Era to assembly intermediates of the 30S subunit. ''Nucleic Acids Res''. 2016 Nov 16; '''44''' (20):9918-9932
Finding approximate gene clusters with Gecko 3. Description: Winter, Sascha, et al. Finding approximate gene clusters with Gecko 3. ''Nucleic Acids Res''. 2016 Nov 16; '''44''' (20):9600-9610
Identification of genes for engineering the male germline of Aedes aegypti and Ceratitis capitata. Description: Sutton, Elizabeth R, et al. Identification of genes for engineering the male germline of Aedes aegypti and Ceratitis capitata. ''BMC Genomics''. 2016 Nov 21; '''17''' (1):948
Clustering of disulfide-rich peptides provides scaffolds for hit discovery by phage display: application to interleukin-23. Description: Barkan, David T, et al. Clustering of disulfide-rich peptides provides scaffolds for hit discovery by phage display: application to interleukin-23. ''BMC Bioinformatics''. 2016 Nov 23; '''17''' (1):481
Differential fecal microbiota are retained in broiler chicken lines divergently selected for fatness traits. Description: Hou, Qiangchuan, et al. Differential fecal microbiota are retained in broiler chicken lines divergently selected for fatness traits. ''Sci Rep''. 2016 Nov 23; '''6''': 37376
Identification of Object Dynamics Using Hand Worn Motion and Force Sensors. Description: Kortier, Henk G, et al. Identification of Object Dynamics Using Hand Worn Motion and Force Sensors. ''Sensors (Basel)''. 2016 Nov 26; '''16''' (12):
A large dataset of synthetic SEM images of powder materials and their ground truth 3D structures. Description: DeCost, Brian L, et al. A large dataset of synthetic SEM images of powder materials and their ground truth 3D structures. ''Data Brief''. 2016 Dec; '''9''': 727-731
Analog series-based scaffolds: computational design and exploration of a new type of molecular scaffolds for medicinal chemistry. Description: Dimova, Dilyana, et al. Analog series-based scaffolds: computational design and exploration of a new type of molecular scaffolds for medicinal chemistry. ''Future Sci OA''. 2016 Dec; '''2''' (4):FSO149
Big Data Mining and Adverse Event Pattern Analysis in Clinical Drug Trials. Description: Federer, Callie, et al. Big Data Mining and Adverse Event Pattern Analysis in Clinical Drug Trials. ''Assay Drug Dev Technol''. 2016 Dec; '''14''' (10):557-566
Comparative Leaf and Root Transcriptomic Analysis of two Rice Japonica Cultivars Reveals Major Differences in the Root Early Response to Osmotic Stress. Description: Baldoni, Elena, et al. Comparative Leaf and Root Transcriptomic Analysis of two Rice Japonica Cultivars Reveals Major Differences in the Root Early Response to Osmotic Stress. ''Rice (N Y)''. 2016 Dec; '''9''' (1):25
Data of methylome and transcriptome derived from human dilated cardiomyopathy. Description: Jo, Bong-Seok, et al. Data of methylome and transcriptome derived from human dilated cardiomyopathy. ''Data Brief''. 2016 Dec; '''9''': 382-387
Inferential Structure Determination of Chromosomes from Single-Cell Hi-C Data. Description: Carstens, Simeon, et al. Inferential Structure Determination of Chromosomes from Single-Cell Hi-C Data. ''PLoS Comput Biol''. 2016 Dec; '''12''' (12):e1005292
Methylome Analysis of Two Xanthomonas spp. Using Single-Molecule Real-Time Sequencing. Description: Seong, Hoon Je, et al. Methylome Analysis of Two Xanthomonas spp. Using Single-Molecule Real-Time Sequencing. ''Plant Pathol J''. 2016 Dec; '''32''' (6):500-507
Revisiting adult neurogenesis and the role of erythropoietin for neuronal and oligodendroglial differentiation in the hippocampus. Description: Hassouna, I, et al. Revisiting adult neurogenesis and the role of erythropoietin for neuronal and oligodendroglial differentiation in the hippocampus. ''Mol Psychiatry''. 2016 Dec; '''21''' (12):1752-1767
MHC-dependent mate choice is linked to a trace-amine-associated receptor gene in a mammal. Description: Santos, Pablo S C, et al. MHC-dependent mate choice is linked to a trace-amine-associated receptor gene in a mammal. ''Sci Rep''. 2016 Dec 12; '''6''': 38490
Measuring the sequence-affinity landscape of antibodies with massively parallel titration curves. Description: Adams, Rhys M, et al. Measuring the sequence-affinity landscape of antibodies with massively parallel titration curves. ''Elife''. 2016 Dec 30; '''5''':
A microbial survey of the International Space Station (ISS). Description: Lang, Jenna M, et al. A microbial survey of the International Space Station (ISS). ''PeerJ''. 2017; '''5''': e4029
A Model of Compound Heterozygous, Loss-of-Function Alleles Is Broadly Consistent with Observations from Complex-Disease GWAS Datasets. Description: Sanjak, Jaleal S, et al. A Model of Compound Heterozygous, Loss-of-Function Alleles Is Broadly Consistent with Observations from Complex-Disease GWAS Datasets. ''PLoS Genet''. 2017 Jan; '''13''' (1):e1006573
A Preliminary List of Horizontally Transferred Genes in Prokaryotes Determined by Tree Reconstruction and Reconciliation. Description: Jeong, Hyeonsoo, et al. A Preliminary List of Horizontally Transferred Genes in Prokaryotes Determined by Tree Reconstruction and Reconciliation. ''Front Genet''. 2017; '''8''': 112
Assessment of Ruminal Bacterial and Archaeal Community Structure in Yak (Bos grunniens). Description: Zhou, Zhenming, et al. Assessment of Ruminal Bacterial and Archaeal Community Structure in Yak (Bos grunniens). ''Front Microbiol''. 2017; '''8''': 179
Automated PDF highlighting to support faster curation of literature for Parkinson's and Alzheimer's disease. Description: Wu, Honghan, et al. Automated PDF highlighting to support faster curation of literature for Parkinson's and Alzheimer's disease. ''Database (Oxford)''. 2017 Jan 1; '''2017''' (1):
Chemical Diversity and Complexity of Scotch Whisky as Revealed by High-Resolution Mass Spectrometry. Description: Kew, Will, et al. Chemical Diversity and Complexity of Scotch Whisky as Revealed by High-Resolution Mass Spectrometry. ''J Am Soc Mass Spectrom''. 2017 Jan; '''28''' (1):200-213
Classification of Isolates from the Pseudomonas fluorescens Complex into Phylogenomic Groups Based in Group-Specific Markers. Description: Garrido-Sanz, Daniel, et al. Classification of Isolates from the Pseudomonas fluorescens Complex into Phylogenomic Groups Based in Group-Specific Markers. ''Front Microbiol''. 2017; '''8''': 413
Cliques of Neurons Bound into Cavities Provide a Missing Link between Structure and Function. Description: Reimann, Michael W, et al. Cliques of Neurons Bound into Cavities Provide a Missing Link between Structure and Function. ''Front Comput Neurosci''. 2017; '''11''': 48
Comparative Genomics of Burkholderia singularis sp. nov., a Low G+C Content, Free-Living Bacterium That Defies Taxonomic Dissection of the Genus Burkholderia. Description: Vandamme, Peter, et al. Comparative Genomics of Burkholderia singularis sp. nov., a Low G+C Content, Free-Living Bacterium That Defies Taxonomic Dissection of the Genus Burkholderia. ''Front Microbiol''. 2017; '''8''': 1679
Comparative mitochondrial and chloroplast genomics of a genetically distinct form of Sargassum contributing to recent "Golden Tides" in the Western Atlantic. Description: Amaral-Zettler, Linda A, et al. Comparative mitochondrial and chloroplast genomics of a genetically distinct form of Sargassum contributing to recent "Golden Tides" in the Western Atlantic. ''Ecol Evol''. 2017 Jan; '''7''' (2):516-525
Comparative transcriptomics of genetically divergent lines of chickens in response to Marek's disease virus challenge at cytolytic phase. Description: Dong, Kunzhe, et al. Comparative transcriptomics of genetically divergent lines of chickens in response to Marek's disease virus challenge at cytolytic phase. ''PLoS One''. 2017; '''12''' (6):e0178923
Comparison of sequential multiplex PCR, sequetyping and whole genome sequencing for serotyping of Streptococcus pneumoniae. Description: Mauffrey, Florian, et al. Comparison of sequential multiplex PCR, sequetyping and whole genome sequencing for serotyping of Streptococcus pneumoniae. ''PLoS One''. 2017; '''12''' (12):e0189163
Connecting Artificial Brains to Robots in a Comprehensive Simulation Framework: The Neurorobotics Platform. Description: Falotico, Egidio, et al. Connecting Artificial Brains to Robots in a Comprehensive Simulation Framework: The Neurorobotics Platform. ''Front Neurorobot''. 2017; '''11''': 2
De novo Transcriptome Profiling of Flowers, Flower Pedicels and Pods of Lupinus luteus (Yellow Lupine) Reveals Complex Expression Changes during Organ Abscission. Description: Glazinska, Paulina, et al. De novo Transcriptome Profiling of Flowers, Flower Pedicels and Pods of Lupinus luteus (Yellow Lupine) Reveals Complex Expression Changes during Organ Abscission. ''Front Plant Sci''. 2017; '''8''': 641
Differential diagnosis of mild cognitive impairment and Alzheimer's disease using structural MRI cortical thickness, hippocampal shape, hippocampal texture, and volumetry. Description: Sorensen, Lauge, et al. Differential diagnosis of mild cognitive impairment and Alzheimer's disease using structural MRI cortical thickness, hippocampal shape, hippocampal texture, and volumetry. ''Neuroimage Clin''. 2017; '''13''': 470-482
Different Types of Dietary Fibers Trigger Specific Alterations in Composition and Predicted Functions of Colonic Bacterial Communities in BALB/c Mice. Description: Luo, Yuheng, et al. Different Types of Dietary Fibers Trigger Specific Alterations in Composition and Predicted Functions of Colonic Bacterial Communities in BALB/c Mice. ''Front Microbiol''. 2017; '''8''': 966
Discovery of Novel Leptospirosis Vaccine Candidates Using Reverse and Structural Vaccinology. Description: Grassmann, Andre Alex, et al. Discovery of Novel Leptospirosis Vaccine Candidates Using Reverse and Structural Vaccinology. ''Front Immunol''. 2017; '''8''': 463
Early-branching euteleost relationships: areas of congruence between concatenation and coalescent model inferences. Description: Campbell, Matthew A, et al. Early-branching euteleost relationships: areas of congruence between concatenation and coalescent model inferences. ''PeerJ''. 2017; '''5''': e3548
Effects of Kluyveromyces marxianus supplementation on immune responses, intestinal structure and microbiota in broiler chickens. Description: Wang, Weiwei, et al. Effects of Kluyveromyces marxianus supplementation on immune responses, intestinal structure and microbiota in broiler chickens. ''PLoS One''. 2017; '''12''' (7):e0180884
Evidence of complex contagion of information in social media: An experiment using Twitter bots. Description: Monsted, Bjarke, et al. Evidence of complex contagion of information in social media: An experiment using Twitter bots. ''PLoS One''. 2017; '''12''' (9):e0184148
Genome Target Evaluator (GTEvaluator): A workflow exploiting genome dataset to measure the sensitivity and specificity of genetic markers. Description: Felten, Arnaud, et al. Genome Target Evaluator (GTEvaluator): A workflow exploiting genome dataset to measure the sensitivity and specificity of genetic markers. ''PLoS One''. 2017; '''12''' (7):e0182082
Genome-Wide Association Mapping and Genomic Selection for Alfalfa (Medicago sativa) Forage Quality Traits. Description: Biazzi, Elisa, et al. Genome-Wide Association Mapping and Genomic Selection for Alfalfa (Medicago sativa) Forage Quality Traits. ''PLoS One''. 2017; '''12''' (1):e0169234
Head Stabilization in the Pigeon: Role of Vision to Correct for Translational and Rotational Disturbances. Description: Theunissen, Leslie M, et al. Head Stabilization in the Pigeon: Role of Vision to Correct for Translational and Rotational Disturbances. ''Front Neurosci''. 2017; '''11''': 551
Host Specificity for Bacterial, Archaeal and Fungal Communities Determined for High- and Low-Microbial Abundance Sponge Species in Two Genera. Description: Chaib De Mares, Maryam, et al. Host Specificity for Bacterial, Archaeal and Fungal Communities Determined for High- and Low-Microbial Abundance Sponge Species in Two Genera. ''Front Microbiol''. 2017; '''8''': 2560
Hyperpolarization-Activated Current Induces Period-Doubling Cascades and Chaos in a Cold Thermoreceptor Model. Description: Xu, Kesheng, et al. Hyperpolarization-Activated Current Induces Period-Doubling Cascades and Chaos in a Cold Thermoreceptor Model. ''Front Comput Neurosci''. 2017; '''11''': 12
Identification of Secondary Metabolite Gene Clusters in the Pseudovibrio Genus Reveals Encouraging Biosynthetic Potential toward the Production of Novel Bioactive Compounds. Description: Naughton, Lynn M, et al. Identification of Secondary Metabolite Gene Clusters in the Pseudovibrio Genus Reveals Encouraging Biosynthetic Potential toward the Production of Novel Bioactive Compounds. ''Front Microbiol''. 2017; '''8''': 1494
Impact of extensive antibiotic treatment on faecal carriage of antibiotic-resistant enterobacteria in children in a low resistance prevalence setting. Description: Knudsen, Per Kristian, et al. Impact of extensive antibiotic treatment on faecal carriage of antibiotic-resistant enterobacteria in children in a low resistance prevalence setting. ''PLoS One''. 2017; '''12''' (11):e0187618
KTCNlncDB-a first platform to investigate lncRNAs expressed in human keratoconus and non-keratoconus corneas. Description: Szczesniak, Michal W, et al. KTCNlncDB-a first platform to investigate lncRNAs expressed in human keratoconus and non-keratoconus corneas. ''Database (Oxford)''. 2017; '''2017''':
Linking epigenetic function to electrostatics: The DNMT2 structural model example. Description: Vieira, Gilberto Cavalheiro, et al. Linking epigenetic function to electrostatics: The DNMT2 structural model example. ''PLoS One''. 2017; '''12''' (6):e0178643
microRNAs and Their Targets in Apple (Malus domestica cv. "Fuji") Involved in Response to Infection of Pathogen Valsa mali. Description: Feng, Hao, et al. microRNAs and Their Targets in Apple (Malus domestica cv. "Fuji") Involved in Response to Infection of Pathogen Valsa mali. ''Front Plant Sci''. 2017; '''8''': 2081
MitoSuite: a graphical tool for human mitochondrial genome profiling in massive parallel sequencing. Description: Ishiya, Koji, et al. MitoSuite: a graphical tool for human mitochondrial genome profiling in massive parallel sequencing. ''PeerJ''. 2017; '''5''': e3406
Molecular dynamics simulation unveils the conformational flexibility of the interdomain linker in the bacterial transcriptional regulator GabR from Bacillus subtilis bound to pyridoxal 5'-phosphate. Description: Milano, Teresa, et al. Molecular dynamics simulation unveils the conformational flexibility of the interdomain linker in the bacterial transcriptional regulator GabR from Bacillus subtilis bound to pyridoxal 5'-phosphate. ''PLoS One''. 2017; '''12''' (12):e0189270
Nanoparticle-Encapsulated Curcumin Inhibits Diabetic Neuropathic Pain Involving the P2Y12 Receptor in the Dorsal Root Ganglia. Description: Jia, Tianyu, et al. Nanoparticle-Encapsulated Curcumin Inhibits Diabetic Neuropathic Pain Involving the P2Y12 Receptor in the Dorsal Root Ganglia. ''Front Neurosci''. 2017; '''11''': 755
NCAM Regulates Inhibition and Excitability in Layer 2/3 Pyramidal Cells of Anterior Cingulate Cortex. Description: Zhang, Xuying, et al. NCAM Regulates Inhibition and Excitability in Layer 2/3 Pyramidal Cells of Anterior Cingulate Cortex. ''Front Neural Circuits''. 2017; '''11''': 19
Neuroimaging, Genetics, and Clinical Data Sharing in Python Using the CubicWeb Framework. Description: Grigis, Antoine, et al. Neuroimaging, Genetics, and Clinical Data Sharing in Python Using the CubicWeb Framework. ''Front Neuroinform''. 2017; '''11''': 18
Neutrophil Interactions Stimulate Evasive Hyphal Branching by Aspergillus fumigatus. Description: Ellett, Felix, et al. Neutrophil Interactions Stimulate Evasive Hyphal Branching by Aspergillus fumigatus. ''PLoS Pathog''. 2017 Jan; '''13''' (1):e1006154
Oxygen-limited metabolism in the methanotroph Methylomicrobium buryatense 5GB1C. Description: Gilman, Alexey, et al. Oxygen-limited metabolism in the methanotroph Methylomicrobium buryatense 5GB1C. ''PeerJ''. 2017; '''5''': e3945
Physical Interactions and Expression Quantitative Traits Loci Identify Regulatory Connections for Obesity and Type 2 Diabetes Associated SNPs. Description: Fadason, Tayaza, et al. Physical Interactions and Expression Quantitative Traits Loci Identify Regulatory Connections for Obesity and Type 2 Diabetes Associated SNPs. ''Front Genet''. 2017; '''8''': 150
Qualitative Analysis of Microbial Dynamics during Anaerobic Digestion of Microalgal Biomass in a UASB Reactor. Description: Doloman, Anna, et al. Qualitative Analysis of Microbial Dynamics during Anaerobic Digestion of Microalgal Biomass in a UASB Reactor. ''Int J Microbiol''. 2017; '''2017''': 5291283
Quantitative Characterization of the T Cell Receptor Repertoire of Naive and Memory Subsets Using an Integrated Experimental and Computational Pipeline Which Is Robust, Economical, and Versatile. Description: Oakes, Theres, et al. Quantitative Characterization of the T Cell Receptor Repertoire of Naive and Memory Subsets Using an Integrated Experimental and Computational Pipeline Which Is Robust, Economical, and Versatile. ''Front Immunol''. 2017; '''8''': 1267
Quantitative Comparison of Effects of Dofetilide, Sotalol, Quinidine, and Verapamil between Human Ex vivo Trabeculae and In silico Ventricular Models Incorporating Inter-Individual Action Potential Variability. Description: Britton, Oliver J, et al. Quantitative Comparison of Effects of Dofetilide, Sotalol, Quinidine, and Verapamil between Human Ex vivo Trabeculae and In silico Ventricular Models Incorporating Inter-Individual Action Potential Variability. ''Front Physiol''. 2017; '''8''': 597
Structural features embedded in G protein-coupled receptor co-crystal structures are key to their success in virtual screening. Description: Coudrat, Thomas, et al. Structural features embedded in G protein-coupled receptor co-crystal structures are key to their success in virtual screening. ''PLoS One''. 2017; '''12''' (4):e0174719
Synaptic Activation of a Detailed Purkinje Cell Model Predicts Voltage-Dependent Control of Burst-Pause Responses in Active Dendrites. Description: Masoli, Stefano, et al. Synaptic Activation of a Detailed Purkinje Cell Model Predicts Voltage-Dependent Control of Burst-Pause Responses in Active Dendrites. ''Front Cell Neurosci''. 2017; '''11''': 278
Task-Difficulty Homeostasis in Car Following Models: Experimental Validation Using Self-Paced Visual Occlusion. Description: Pekkanen, Jami, et al. Task-Difficulty Homeostasis in Car Following Models: Experimental Validation Using Self-Paced Visual Occlusion. ''PLoS One''. 2017; '''12''' (1):e0169704
The effect of Nipped-B-like (Nipbl) haploinsufficiency on genome-wide cohesin binding and target gene expression: modeling Cornelia de Lange syndrome. Description: Newkirk, Daniel A, et al. The effect of Nipped-B-like (Nipbl) haploinsufficiency on genome-wide cohesin binding and target gene expression: modeling Cornelia de Lange syndrome. ''Clin Epigenetics''. 2017; '''9''': 89
The Sit-and-Wait Hypothesis in Bacterial Pathogens: A Theoretical Study of Durability and Virulence. Description: Wang, Liang, et al. The Sit-and-Wait Hypothesis in Bacterial Pathogens: A Theoretical Study of Durability and Virulence. ''Front Microbiol''. 2017; '''8''': 2167
The T Cell Response to the Contact Sensitizer Paraphenylenediamine Is Characterized by a Polyclonal Diverse Repertoire of Antigen-Specific Receptors. Description: Oakes, Theres, et al. The T Cell Response to the Contact Sensitizer Paraphenylenediamine Is Characterized by a Polyclonal Diverse Repertoire of Antigen-Specific Receptors. ''Front Immunol''. 2017; '''8''': 162
Transcription factors, coregulators, and epigenetic marks are linearly correlated and highly redundant. Description: Ahsendorf, Tobias, et al. Transcription factors, coregulators, and epigenetic marks are linearly correlated and highly redundant. ''PLoS One''. 2017; '''12''' (12):e0186324
Transcriptome profile of one-month-old lambs' granulosa cells after superstimulation. Description: Wu, Yangsheng, et al. Transcriptome profile of one-month-old lambs' granulosa cells after superstimulation. ''Asian-Australas J Anim Sci''. 2017 Jan; '''30''' (1):20-33
Ultra-deep sequencing reveals high prevalence and broad structural diversity of hepatitis B surface antigen mutations in a global population. Description: Gencay, Mikael, et al. Ultra-deep sequencing reveals high prevalence and broad structural diversity of hepatitis B surface antigen mutations in a global population. ''PLoS One''. 2017; '''12''' (5):e0172101
PMDBase: a database for studying microsatellite DNA and marker development in plants. Description: Yu, Jingyin, et al. PMDBase: a database for studying microsatellite DNA and marker development in plants. ''Nucleic Acids Res''. 2017 Jan 4; '''45''' (D1):D1046-D1053
The ExAC browser: displaying reference data information from over 60 000 exomes. Description: Karczewski, Konrad J, et al. The ExAC browser: displaying reference data information from over 60 000 exomes. ''Nucleic Acids Res''. 2017 Jan 4; '''45''' (D1):D840-D845
iSeq: A New Double-Barcode Method for Detecting Dynamic Genetic Interactions in Yeast. Description: Jaffe, Mia, et al. iSeq: A New Double-Barcode Method for Detecting Dynamic Genetic Interactions in Yeast. ''G3 (Bethesda)''. 2017 Jan 5; '''7''' (1):143-153
Updating temporal expectancy of an aversive event engages striatal plasticity under amygdala control. Description: Dallerac, Glenn, et al. Updating temporal expectancy of an aversive event engages striatal plasticity under amygdala control. ''Nat Commun''. 2017 Jan 9; '''8''': 13920
Utilising polymorphisms to achieve allele-specific genome editing in zebrafish. Description: Capon, Samuel J, et al. Utilising polymorphisms to achieve allele-specific genome editing in zebrafish. ''Biol Open''. 2017 Jan 15; '''6''' (1):125-131
Characterization of two polyvalent phages infecting Enterobacteriaceae. Description: Hamdi, Sana, et al. Characterization of two polyvalent phages infecting Enterobacteriaceae. ''Sci Rep''. 2017 Jan 16; '''7''': 40349
Sox17 drives functional engraftment of endothelium converted from non-vascular cells. Description: Schachterle, William, et al. Sox17 drives functional engraftment of endothelium converted from non-vascular cells. ''Nat Commun''. 2017 Jan 16; '''8''': 13963
DNA copy number changes define spatial patterns of heterogeneity in colorectal cancer. Description: Mamlouk, Soulafa, et al. DNA copy number changes define spatial patterns of heterogeneity in colorectal cancer. ''Nat Commun''. 2017 Jan 25; '''8''': 14093
Emergent Properties of Giant Vesicles Formed by a Polymerization-Induced Self-Assembly (PISA) Reaction. Description: Albertsen, Anders N, et al. Emergent Properties of Giant Vesicles Formed by a Polymerization-Induced Self-Assembly (PISA) Reaction. ''Sci Rep''. 2017 Jan 27; '''7''': 41534
Amoebozoans Are Secretly but Ancestrally Sexual: Evidence for Sex Genes and Potential Novel Crossover Pathways in Diverse Groups of Amoebae. Description: Tekle, Yonas I, et al. Amoebozoans Are Secretly but Ancestrally Sexual: Evidence for Sex Genes and Potential Novel Crossover Pathways in Diverse Groups of Amoebae. ''Genome Biol Evol''. 2017 Feb 1; '''9''' (2):375-387
Automated microbeam observation environment for biological analysis-Custom portable environmental control applied to a vertical microbeam system. Description: England, Matthew J, et al. Automated microbeam observation environment for biological analysis-Custom portable environmental control applied to a vertical microbeam system. ''Sens Actuators B Chem''. 2017 Feb; '''239''': 1134-1143
Cancer cells exhibit clonal diversity in phenotypic plasticity. Description: Mathis, Robert Austin, et al. Cancer cells exhibit clonal diversity in phenotypic plasticity. ''Open Biol''. 2017 Feb; '''7''' (2):
Comparative genomics of Vibrio campbellii strains and core species of the Vibrio Harveyi clade. Description: Ke, Huei-Mien, et al. Comparative genomics of Vibrio campbellii strains and core species of the Vibrio Harveyi clade. ''Sci Rep''. 2017 Feb 1; '''7''': 41394
Genome composition and phylogeny of microbes predict their co-occurrence in the environment. Description: Kamneva, Olga K. Genome composition and phylogeny of microbes predict their co-occurrence in the environment. ''PLoS Comput Biol''. 2017 Feb; '''13''' (2):e1005366
Mitochondrial DNA point mutations and relative copy number in 1363 disease and control human brains. Description: Wei, Wei, et al. Mitochondrial DNA point mutations and relative copy number in 1363 disease and control human brains. ''Acta Neuropathol Commun''. 2017 Feb 2; '''5''' (1):13
Combined analysis of mRNA and miRNA identifies dehydration and salinity responsive key molecular players in citrus roots. Description: Xie, Rangjin, et al. Combined analysis of mRNA and miRNA identifies dehydration and salinity responsive key molecular players in citrus roots. ''Sci Rep''. 2017 Feb 6; '''7''': 42094
Phylointeractomics reconstructs functional evolution of protein binding. Description: Kappei, Dennis, et al. Phylointeractomics reconstructs functional evolution of protein binding. ''Nat Commun''. 2017 Feb 8; '''8''': 14334
ECDomainMiner: discovering hidden associations between enzyme commission numbers and Pfam domains. Description: Alborzi, Seyed Ziaeddin, et al. ECDomainMiner: discovering hidden associations between enzyme commission numbers and Pfam domains. ''BMC Bioinformatics''. 2017 Feb 13; '''18''' (1):107
HAPPI-2: a Comprehensive and High-quality Map of Human Annotated and Predicted Protein Interactions. Description: Chen, Jake Y, et al. HAPPI-2: a Comprehensive and High-quality Map of Human Annotated and Predicted Protein Interactions. ''BMC Genomics''. 2017 Feb 17; '''18''' (1):182
Registry in a tube: multiplexed pools of retrievable parts for genetic design space exploration. Description: Woodruff, Lauren B A, et al. Registry in a tube: multiplexed pools of retrievable parts for genetic design space exploration. ''Nucleic Acids Res''. 2017 Feb 17; '''45''' (3):1553-1565
Deep Illumina sequencing reveals conserved and novel microRNAs in grass carp in response to grass carp reovirus infection. Description: He, Libo, et al. Deep Illumina sequencing reveals conserved and novel microRNAs in grass carp in response to grass carp reovirus infection. ''BMC Genomics''. 2017 Feb 20; '''18''' (1):195
Fallacy of the Unique Genome: Sequence Diversity within Single Helicobacter pylori Strains. Description: Draper, Jenny L, et al. Fallacy of the Unique Genome: Sequence Diversity within Single Helicobacter pylori Strains. ''mBio''. 2017 Feb 21; '''8''' (1):
Exploring the transcriptome of non-model oleaginous microalga Dunaliella tertiolecta through high-throughput sequencing and high performance computing. Description: Yao, Lina, et al. Exploring the transcriptome of non-model oleaginous microalga Dunaliella tertiolecta through high-throughput sequencing and high performance computing. ''BMC Bioinformatics''. 2017 Feb 22; '''18''' (1):122
Development of a pipeline for automated, high-throughput analysis of paraspeckle proteins reveals specific roles for importin alpha proteins. Description: Major, Andrew T, et al. Development of a pipeline for automated, high-throughput analysis of paraspeckle proteins reveals specific roles for importin alpha proteins. ''Sci Rep''. 2017 Feb 27; '''7''': 43323
Chemical imaging of Fischer-Tropsch catalysts under operating conditions. Description: Price, Stephen W T, et al. Chemical imaging of Fischer-Tropsch catalysts under operating conditions. ''Sci Adv''. 2017 Mar; '''3''' (3):e1602838
Health and Disease Imprinted in the Time Variability of the Human Microbiome. Description: Marti, Jose Manuel, et al. Health and Disease Imprinted in the Time Variability of the Human Microbiome. ''mSystems''. 2017 Mar-Apr; '''2''' (2):
Arabidopsis HAP2/GCS1 is a gamete fusion protein homologous to somatic and viral fusogens. Description: Valansi, Clari, et al. Arabidopsis HAP2/GCS1 is a gamete fusion protein homologous to somatic and viral fusogens. ''J Cell Biol''. 2017 Mar 6; '''216''' (3):571-581
Computational Modeling of complete HOXB13 protein for predicting the functional effect of SNPs and the associated role in hereditary prostate cancer. Description: Chandrasekaran, Gopalakrishnan, et al. Computational Modeling of complete HOXB13 protein for predicting the functional effect of SNPs and the associated role in hereditary prostate cancer. ''Sci Rep''. 2017 Mar 8; '''7''': 43830
Genome expression balance in a triploid trihybrid vertebrate. Description: McElroy, Kyle E, et al. Genome expression balance in a triploid trihybrid vertebrate. ''Genome Biol Evol''. 2017 Mar 22;
Synergistic infection of BrYV and PEMV 2 increases the accumulations of both BrYV and BrYV-derived siRNAs in Nicotiana benthamiana. Description: Zhou, Cui-Ji, et al. Synergistic infection of BrYV and PEMV 2 increases the accumulations of both BrYV and BrYV-derived siRNAs in Nicotiana benthamiana. ''Sci Rep''. 2017 Mar 27; '''7''': 45132
Adaptive differentiation coincides with local bioclimatic conditions along an elevational cline in populations of a lichen-forming fungus. Description: Dal Grande, Francesco, et al. Adaptive differentiation coincides with local bioclimatic conditions along an elevational cline in populations of a lichen-forming fungus. ''BMC Evol Biol''. 2017 Mar 31; '''17''' (1):93
A latitudinal phylogeographic diversity gradient in birds. Description: Smith, Brian Tilston, et al. A latitudinal phylogeographic diversity gradient in birds. ''PLoS Biol''. 2017 Apr; '''15''' (4):e2001073
Low-dose fixed-target serial synchrotron crystallography. Description: Owen, Robin L, et al. Low-dose fixed-target serial synchrotron crystallography. ''Acta Crystallogr D Struct Biol''. 2017 Apr 1; '''73''' (Pt 4):373-378
Patterns of genetic, phenotypic, and acoustic variation across a chiffchaff (Phylloscopus collybita abietinus/tristis) hybrid zone. Description: Shipilina, Daria, et al. Patterns of genetic, phenotypic, and acoustic variation across a chiffchaff (Phylloscopus collybita abietinus/tristis) hybrid zone. ''Ecol Evol''. 2017 Apr; '''7''' (7):2169-2180
Regulation of Glucose Uptake and Enteroendocrine Function by the Intestinal Epithelial Insulin Receptor. Description: Ussar, Siegfried, et al. Regulation of Glucose Uptake and Enteroendocrine Function by the Intestinal Epithelial Insulin Receptor. ''Diabetes''. 2017 Apr; '''66''' (4):886-896
The effect of epigenetic modifications on the secondary structures and possible binding positions of the N-terminal tail of histone H3 in the nucleosome: a computational study. Description: du Preez, Louis L, et al. The effect of epigenetic modifications on the secondary structures and possible binding positions of the N-terminal tail of histone H3 in the nucleosome: a computational study. ''J Mol Model''. 2017 Apr; '''23''' (4):137
Genetic Adaptation of Schizothoracine Fish to the Phased Uplifting of the Qinghai-Tibetan Plateau. Description: Zhang, Dongsheng, et al. Genetic Adaptation of Schizothoracine Fish to the Phased Uplifting of the Qinghai-Tibetan Plateau. ''G3 (Bethesda)''. 2017 Apr 3; '''7''' (4):1267-1276
Quantification of bioluminescence from the surface to the deep sea demonstrates its predominance as an ecological trait. Description: Martini, Severine, et al. Quantification of bioluminescence from the surface to the deep sea demonstrates its predominance as an ecological trait. ''Sci Rep''. 2017 Apr 4; '''7''': 45750
3D lattice distortions and defect structures in ion-implanted nano-crystals. Description: Hofmann, Felix, et al. 3D lattice distortions and defect structures in ion-implanted nano-crystals. ''Sci Rep''. 2017 Apr 6; '''7''': 45993
Modulation of nonsense mediated decay by rapamycin. Description: Martinez-Nunez, Rocio T, et al. Modulation of nonsense mediated decay by rapamycin. ''Nucleic Acids Res''. 2017 Apr 7; '''45''' (6):3448-3459
The within-host population dynamics of Mycobacterium tuberculosis vary with treatment efficacy. Description: Trauner, Andrej, et al. The within-host population dynamics of Mycobacterium tuberculosis vary with treatment efficacy. ''Genome Biol''. 2017 Apr 19; '''18''' (1):71
RNA binding and chaperone activity of the E. coli cold-shock protein CspA. Description: Rennella, Enrico, et al. RNA binding and chaperone activity of the E. coli cold-shock protein CspA. ''Nucleic Acids Res''. 2017 Apr 20; '''45''' (7):4255-4268
A photoconversion model for full spectral programming and multiplexing of optogenetic systems. Description: Olson, Evan J, et al. A photoconversion model for full spectral programming and multiplexing of optogenetic systems. ''Mol Syst Biol''. 2017 Apr 24; '''13''' (4):926
A new genome-mining tool redefines the lasso peptide biosynthetic landscape. Description: Tietz, Jonathan I, et al. A new genome-mining tool redefines the lasso peptide biosynthetic landscape. ''Nat Chem Biol''. 2017 May; '''13''' (5):470-478
A single-copy Sleeping Beauty transposon mutagenesis screen identifies new PTEN-cooperating tumor suppressor genes. Description: de la Rosa, Jorge, et al. A single-copy Sleeping Beauty transposon mutagenesis screen identifies new PTEN-cooperating tumor suppressor genes. ''Nat Genet''. 2017 May; '''49''' (5):730-741
Blood RNA biomarkers in prodromal PARK4 and rapid eye movement sleep behavior disorder show role of complexin 1 loss for risk of Parkinson's disease. Description: Lahut, Suna, et al. Blood RNA biomarkers in prodromal PARK4 and rapid eye movement sleep behavior disorder show role of complexin 1 loss for risk of Parkinson's disease. ''Dis Model Mech''. 2017 May 1; '''10''' (5):619-631
Exploring Evolutionary Relationships Across the Genome Using Topology Weighting. Description: Martin, Simon H, et al. Exploring Evolutionary Relationships Across the Genome Using Topology Weighting. ''Genetics''. 2017 May; '''206''' (1):429-438
Minute Impurities Contribute Significantly to Olfactory Receptor Ligand Studies: Tales from Testing the Vibration Theory. Description: Paoli, M, et al. Minute Impurities Contribute Significantly to Olfactory Receptor Ligand Studies: Tales from Testing the Vibration Theory. ''eNeuro''. 2017 May-Jun; '''4''' (3):
Identification of small molecule inhibitors of the Aurora-A/TPX2 complex. Description: Asteriti, Italia Anna, et al. Identification of small molecule inhibitors of the Aurora-A/TPX2 complex. ''Oncotarget''. 2017 May 9; '''8''' (19):32117-32133
Mistranslation can enhance fitness through purging of deleterious mutations. Description: Bratulic, Sinisa, et al. Mistranslation can enhance fitness through purging of deleterious mutations. ''Nat Commun''. 2017 May 19; '''8''': 15410
Characterization of porcine simple sequence repeat variation on a population scale with genome resequencing data. Description: Liu, Congcong, et al. Characterization of porcine simple sequence repeat variation on a population scale with genome resequencing data. ''Sci Rep''. 2017 May 24; '''7''' (1):2376
High-resolution bioelectrical imaging of Abeta-induced network dysfunction on CMOS-MEAs for neurotoxicity and rescue studies. Description: Amin, Hayder, et al. High-resolution bioelectrical imaging of Abeta-induced network dysfunction on CMOS-MEAs for neurotoxicity and rescue studies. ''Sci Rep''. 2017 May 26; '''7''' (1):2460
Epigenomic and functional analyses reveal roles of epialleles in the loss of photoperiod sensitivity during domestication of allotetraploid cottons. Description: Song, Qingxin, et al. Epigenomic and functional analyses reveal roles of epialleles in the loss of photoperiod sensitivity during domestication of allotetraploid cottons. ''Genome Biol''. 2017 May 31; '''18''' (1):99
A curated dataset of complete Enterobacteriaceae plasmids compiled from the NCBI nucleotide database. Description: Orlek, Alex, et al. A curated dataset of complete Enterobacteriaceae plasmids compiled from the NCBI nucleotide database. ''Data Brief''. 2017 Jun; '''12''': 423-426
Fate mapping neurons and glia derived from Dbx1-expressing progenitors in mouse preBotzinger complex. Description: Kottick, Andrew, et al. Fate mapping neurons and glia derived from Dbx1-expressing progenitors in mouse preBotzinger complex. ''Physiol Rep''. 2017 Jun; '''5''' (11):
Papio Baboon Species Indicative Alu Elements. Description: Walker, Jerilyn A, et al. Papio Baboon Species Indicative Alu Elements. ''Genome Biol Evol''. 2017 Jun 1; '''9''' (6):1788-1796
The Rhomboid Protease GlpG Promotes the Persistence of Extraintestinal Pathogenic Escherichia coli within the Gut. Description: Russell, Colin W, et al. The Rhomboid Protease GlpG Promotes the Persistence of Extraintestinal Pathogenic Escherichia coli within the Gut. ''Infect Immun''. 2017 Jun; '''85''' (6):
Functional anatomy of the immunoglobulin heavy chain 3 super-enhancer needs not only core enhancer elements but also their unique DNA context. Description: Le Noir, Sandrine, et al. Functional anatomy of the immunoglobulin heavy chain 3 super-enhancer needs not only core enhancer elements but also their unique DNA context. ''Nucleic Acids Res''. 2017 Jun 2; '''45''' (10):5829-5837
New Martian valley network volume estimate consistent with ancient ocean and warm and wet climate. Description: Luo, Wei, et al. New Martian valley network volume estimate consistent with ancient ocean and warm and wet climate. ''Nat Commun''. 2017 Jun 5; '''8''': 15766
Early Emergence of CD19-Negative Human Antibody-Secreting Cells at the Plasmablast to Plasma Cell Transition. Description: Arumugakani, Gururaj, et al. Early Emergence of CD19-Negative Human Antibody-Secreting Cells at the Plasmablast to Plasma Cell Transition. ''J Immunol''. 2017 Jun 15; '''198''' (12):4618-4628
Kaposi's sarcoma-associated herpesvirus polyadenylated nuclear RNA: a structural scaffold for nuclear, cytoplasmic and viral proteins. Description: Sztuba-Solinska, Joanna, et al. Kaposi's sarcoma-associated herpesvirus polyadenylated nuclear RNA: a structural scaffold for nuclear, cytoplasmic and viral proteins. ''Nucleic Acids Res''. 2017 Jun 20; '''45''' (11):6805-6821
Genome-wide analysis of UDP-glycosyltransferase super family in Brassica rapa and Brassica oleracea reveals its evolutionary history and functional characterization. Description: Yu, Jingyin, et al. Genome-wide analysis of UDP-glycosyltransferase super family in Brassica rapa and Brassica oleracea reveals its evolutionary history and functional characterization. ''BMC Genomics''. 2017 Jun 23; '''18''' (1):474
Translation Initiation from Conserved Non-AUG Codons Provides Additional Layers of Regulation and Coding Capacity. Description: Ivanov, Ivaylo P, et al. Translation Initiation from Conserved Non-AUG Codons Provides Additional Layers of Regulation and Coding Capacity. ''mBio''. 2017 Jun 27; '''8''' (3):
A quantitative and multiplexed approach to uncover the fitness landscape of tumor suppression in vivo. Description: Rogers, Zoe N, et al. A quantitative and multiplexed approach to uncover the fitness landscape of tumor suppression in vivo. ''Nat Methods''. 2017 Jul; '''14''' (7):737-742
Insights into origin and evolution of alpha-proteobacterial gene transfer agents. Description: Shakya, Migun, et al. Insights into origin and evolution of alpha-proteobacterial gene transfer agents. ''Virus Evol''. 2017 Jul; '''3''' (2):vex036
Metabolic Network Analysis and Metatranscriptomics Reveal Auxotrophies and Nutrient Sources of the Cosmopolitan Freshwater Microbial Lineage acI. Description: Hamilton, Joshua J, et al. Metabolic Network Analysis and Metatranscriptomics Reveal Auxotrophies and Nutrient Sources of the Cosmopolitan Freshwater Microbial Lineage acI. ''mSystems''. 2017 Jul-Aug; '''2''' (4):
New Genes and Functional Innovation in Mammals. Description: Luis Villanueva-Canas, Jose, et al. New Genes and Functional Innovation in Mammals. ''Genome Biol Evol''. 2017 Jul 1; '''9''' (7):1886-1900
Shared states: using MVPA to test neural overlap between self-focused emotion imagery and other-focused emotion understanding. Description: Oosterwijk, Suzanne, et al. Shared states: using MVPA to test neural overlap between self-focused emotion imagery and other-focused emotion understanding. ''Soc Cogn Affect Neurosci''. 2017 Jul 1; '''12''' (7):1025-1035
GPCR-SSFE 2.0-a fragment-based molecular modeling web tool for Class A G-protein coupled receptors. Description: Worth, Catherine L, et al. GPCR-SSFE 2.0-a fragment-based molecular modeling web tool for Class A G-protein coupled receptors. ''Nucleic Acids Res''. 2017 Jul 3; '''45''' (W1):W408-W415
Mechanisms for Differential Protein Production in Toxin-Antitoxin Systems. Description: Deter, Heather S, et al. Mechanisms for Differential Protein Production in Toxin-Antitoxin Systems. ''Toxins (Basel)''. 2017 Jul 4; '''9''' (7):
Inter-Synaptic Lateral Diffusion of GABAA Receptors Shapes Inhibitory Synaptic Currents. Description: de Luca, Emanuela, et al. Inter-Synaptic Lateral Diffusion of GABAA Receptors Shapes Inhibitory Synaptic Currents. ''Neuron''. 2017 Jul 5; '''95''' (1):63-69.e5
A flagellum-specific chaperone facilitates assembly of the core type III export apparatus of the bacterial flagellum. Description: Fabiani, Florian D, et al. A flagellum-specific chaperone facilitates assembly of the core type III export apparatus of the bacterial flagellum. ''PLoS Biol''. 2017 Aug; '''15''' (8):e2002267
Diffusion of Single-Pass Transmembrane Receptors: From the Plasma Membrane into Giant Liposomes. Description: Worch, Remigiusz, et al. Diffusion of Single-Pass Transmembrane Receptors: From the Plasma Membrane into Giant Liposomes. ''J Membr Biol''. 2017 Aug; '''250''' (4):393-406
Identification and characterization of the Chinese giant salamander (Andrias davidianus) miRNAs by deep sequencing and predication of their targets. Description: Huang, Yong, et al. Identification and characterization of the Chinese giant salamander (Andrias davidianus) miRNAs by deep sequencing and predication of their targets. ''3 Biotech''. 2017 Aug; '''7''' (4):235
Multi-scale approaches for high-speed imaging and analysis of large neural populations. Description: Friedrich, Johannes, et al. Multi-scale approaches for high-speed imaging and analysis of large neural populations. ''PLoS Comput Biol''. 2017 Aug; '''13''' (8):e1005685
Commensal microbiota maintains alveolar macrophages with a low level of CCL24 production to generate anti-metastatic tumor activity. Description: Cheng, Min, et al. Commensal microbiota maintains alveolar macrophages with a low level of CCL24 production to generate anti-metastatic tumor activity. ''Sci Rep''. 2017 Aug 7; '''7''' (1):7471
Patterns of Genetic Structure and Linkage Disequilibrium in a Large Collection of Pea Germplasm. Description: Siol, Mathieu, et al. Patterns of Genetic Structure and Linkage Disequilibrium in a Large Collection of Pea Germplasm. ''G3 (Bethesda)''. 2017 Aug 7; '''7''' (8):2461-2471
BioCIDER: a Contextualisation InDEx for biological Resources discovery. Description: Horro, Carlos, et al. BioCIDER: a Contextualisation InDEx for biological Resources discovery. ''Bioinformatics''. 2017 Aug 15; '''33''' (16):2607-2608
Transcriptome of neonatal preBotzinger complex neurones in Dbx1 reporter mice. Description: Hayes, John A, et al. Transcriptome of neonatal preBotzinger complex neurones in Dbx1 reporter mice. ''Sci Rep''. 2017 Aug 17; '''7''' (1):8669
Exploring the Sequence-based Prediction of Folding Initiation Sites in Proteins. Description: Raimondi, Daniele, et al. Exploring the Sequence-based Prediction of Folding Initiation Sites in Proteins. ''Sci Rep''. 2017 Aug 18; '''7''' (1):8826
Determination of tRNA aminoacylation levels by high-throughput sequencing. Description: Evans, Molly E, et al. Determination of tRNA aminoacylation levels by high-throughput sequencing. ''Nucleic Acids Res''. 2017 Aug 21; '''45''' (14):e133
The Fusion Loops of the Initial Prefusion Conformation of Herpes Simplex Virus 1 Fusion Protein Point Toward the Membrane. Description: Fontana, Juan, et al. The Fusion Loops of the Initial Prefusion Conformation of Herpes Simplex Virus 1 Fusion Protein Point Toward the Membrane. ''mBio''. 2017 Aug 22; '''8''' (4):
Distinct unfolded protein responses mitigate or mediate effects of nonlethal deprivation of C. elegans sleep in different tissues. Description: Sanders, Jarred, et al. Distinct unfolded protein responses mitigate or mediate effects of nonlethal deprivation of C. elegans sleep in different tissues. ''BMC Biol''. 2017 Aug 28; '''15''' (1):67
Down-regulation of microRNA-155 promotes selenium deficiency-induced apoptosis by tumor necrosis factor receptor superfamily member 1B in the broiler spleen. Description: Liu, Ci, et al. Down-regulation of microRNA-155 promotes selenium deficiency-induced apoptosis by tumor necrosis factor receptor superfamily member 1B in the broiler spleen. ''Oncotarget''. 2017 Aug 29; '''8''' (35):58513-58525
Advanced solvent signal suppression for the acquisition of 1D and 2D NMR spectra of Scotch Whisky. Description: Kew, Will, et al. Advanced solvent signal suppression for the acquisition of 1D and 2D NMR spectra of Scotch Whisky. ''Magn Reson Chem''. 2017 Sep; '''55''' (9):785-796
DELLA genes restrict inflorescence meristem function independently of plant height. Description: Serrano-Mislata, Antonio, et al. DELLA genes restrict inflorescence meristem function independently of plant height. ''Nat Plants''. 2017 Sep; '''3''' (9):749-754
The Recombination Landscape in Wild House Mice Inferred Using Population Genomic Data. Description: Booker, Tom R, et al. The Recombination Landscape in Wild House Mice Inferred Using Population Genomic Data. ''Genetics''. 2017 Sep; '''207''' (1):297-309
Controlling Directed Protein Interaction Networks in Cancer. Description: Kanhaiya, Krishna, et al. Controlling Directed Protein Interaction Networks in Cancer. ''Sci Rep''. 2017 Sep 4; '''7''' (1):10327
ALG-5 is a miRNA-associated Argonaute required for proper developmental timing in the Caenorhabditis elegans germline. Description: Brown, Kristen C, et al. ALG-5 is a miRNA-associated Argonaute required for proper developmental timing in the Caenorhabditis elegans germline. ''Nucleic Acids Res''. 2017 Sep 6; '''45''' (15):9093-9107
The Stress-Inducible Peroxidase TSA2 Underlies a Conditionally Beneficial Chromosomal Duplication in Saccharomyces cerevisiae. Description: Linder, Robert A, et al. The Stress-Inducible Peroxidase TSA2 Underlies a Conditionally Beneficial Chromosomal Duplication in Saccharomyces cerevisiae. ''G3 (Bethesda)''. 2017 Sep 7; '''7''' (9):3177-3184
Evaluating Force Field Performance in Thermodynamic Calculations of Cyclodextrin Host-Guest Binding: Water Models, Partial Charges, and Host Force Field Parameters. Description: Henriksen, Niel M, et al. Evaluating Force Field Performance in Thermodynamic Calculations of Cyclodextrin Host-Guest Binding: Water Models, Partial Charges, and Host Force Field Parameters. ''J Chem Theory Comput''. 2017 Sep 12; '''13''' (9):4253-4269
Evolutionary history and functional divergence of the cytochrome P450 gene superfamily between Arabidopsis thaliana and Brassica species uncover effects of whole genome and tandem duplications. Description: Yu, Jingyin, et al. Evolutionary history and functional divergence of the cytochrome P450 gene superfamily between Arabidopsis thaliana and Brassica species uncover effects of whole genome and tandem duplications. ''BMC Genomics''. 2017 Sep 18; '''18''' (1):733
Transcriptomic analysis of the role of RasGEF1B circular RNA in the TLR4/LPS pathway. Description: Ng, Wei Lun, et al. Transcriptomic analysis of the role of RasGEF1B circular RNA in the TLR4/LPS pathway. ''Sci Rep''. 2017 Sep 25; '''7''' (1):12227
Developmental Restriction of Retrotransposition Activated in Arabidopsis by Environmental Stress. Description: Gaubert, Herve, et al. Developmental Restriction of Retrotransposition Activated in Arabidopsis by Environmental Stress. ''Genetics''. 2017 Oct; '''207''' (2):813-821
Environmental vibrios represent a source of antagonistic compounds that inhibit pathogenic Vibrio cholerae and Vibrio parahaemolyticus strains. Description: Burks, David J, et al. Environmental vibrios represent a source of antagonistic compounds that inhibit pathogenic Vibrio cholerae and Vibrio parahaemolyticus strains. ''Microbiologyopen''. 2017 Oct; '''6''' (5):
Signatures of Selection and Interspecies Introgression in the Genome of Chinese Domestic Pigs. Description: Zhu, Yaling, et al. Signatures of Selection and Interspecies Introgression in the Genome of Chinese Domestic Pigs. ''Genome Biol Evol''. 2017 Oct 1; '''9''' (10):2592-2603
The scaling structure of the global road network. Description: Strano, Emanuele, et al. The scaling structure of the global road network. ''R Soc Open Sci''. 2017 Oct; '''4''' (10):170590
Sequencing of the complete mitochondrial genome of a fish-parasitic flatworm Paratetraonchoides inermis (Platyhelminthes: Monogenea): tRNA gene arrangement reshuffling and implications for phylogeny. Description: Zhang, Dong, et al. Sequencing of the complete mitochondrial genome of a fish-parasitic flatworm Paratetraonchoides inermis (Platyhelminthes: Monogenea): tRNA gene arrangement reshuffling and implications for phylogeny. ''Parasit Vectors''. 2017 Oct 10; '''10''' (1):462
An analysis of 67 RNA-seq datasets from various tissues at different stages of a model insect, Manduca sexta. Description: Cao, Xiaolong, et al. An analysis of 67 RNA-seq datasets from various tissues at different stages of a model insect, Manduca sexta. ''BMC Genomics''. 2017 Oct 17; '''18''' (1):796
Enterococci Mediate the Oviposition Preference of Drosophila melanogaster through Sucrose Catabolism. Description: Liu, Wei, et al. Enterococci Mediate the Oviposition Preference of Drosophila melanogaster through Sucrose Catabolism. ''Sci Rep''. 2017 Oct 18; '''7''' (1):13420
Identification of novel mazEF/pemIK family toxin-antitoxin loci and their distribution in the Staphylococcus genus. Description: Bukowski, Michal, et al. Identification of novel mazEF/pemIK family toxin-antitoxin loci and their distribution in the Staphylococcus genus. ''Sci Rep''. 2017 Oct 18; '''7''' (1):13462
Inferred father-to-son transmission of herpes simplex virus results in near-perfect preservation of viral genome identity and in vivo phenotypes. Description: Pandey, Utsav, et al. Inferred father-to-son transmission of herpes simplex virus results in near-perfect preservation of viral genome identity and in vivo phenotypes. ''Sci Rep''. 2017 Oct 20; '''7''' (1):13666
Dynamics of lineage commitment revealed by single-cell transcriptomics of differentiating embryonic stem cells. Description: Semrau, Stefan, et al. Dynamics of lineage commitment revealed by single-cell transcriptomics of differentiating embryonic stem cells. ''Nat Commun''. 2017 Oct 23; '''8''' (1):1096
Correction of beta-thalassemia mutant by base editor in human embryos. Description: Liang, Puping, et al. Correction of beta-thalassemia mutant by base editor in human embryos. ''Protein Cell''. 2017 Nov; '''8''' (11):811-822
Effects of spatial smoothing on functional brain networks. Description: Alakorkko, Tuomas, et al. Effects of spatial smoothing on functional brain networks. ''Eur J Neurosci''. 2017 Nov; '''46''' (9):2471-2480
Improving virtual screening of G protein-coupled receptors via ligand-directed modeling. Description: Coudrat, Thomas, et al. Improving virtual screening of G protein-coupled receptors via ligand-directed modeling. ''PLoS Comput Biol''. 2017 Nov; '''13''' (11):e1005819
A disulfide bond A-like oxidoreductase is a strong candidate gene for self-incompatibility in apricot (Prunus armeniaca) pollen. Description: Munoz-Sanz, Juan Vicente, et al. A disulfide bond A-like oxidoreductase is a strong candidate gene for self-incompatibility in apricot (Prunus armeniaca) pollen. ''J Exp Bot''. 2017 Nov 2; '''68''' (18):5069-5078
High-frequency recombination between members of an LTR retrotransposon family during transposition bursts. Description: Sanchez, Diego H, et al. High-frequency recombination between members of an LTR retrotransposon family during transposition bursts. ''Nat Commun''. 2017 Nov 3; '''8''' (1):1283
Sex differentiation in grayling (Salmonidae) goes through an all-male stage and is delayed in genetic males who instead grow faster. Description: Maitre, Diane, et al. Sex differentiation in grayling (Salmonidae) goes through an all-male stage and is delayed in genetic males who instead grow faster. ''Sci Rep''. 2017 Nov 3; '''7''' (1):15024
Depletion of somatic mutations in splicing-associated sequences in cancer genomes. Description: Hurst, Laurence D, et al. Depletion of somatic mutations in splicing-associated sequences in cancer genomes. ''Genome Biol''. 2017 Nov 7; '''18''' (1):213
Molecular ensembles make evolution unpredictable. Description: Sailer, Zachary R, et al. Molecular ensembles make evolution unpredictable. ''Proc Natl Acad Sci U S A''. 2017 Nov 7; '''114''' (45):11938-11943
Genetic circuit characterization and debugging using RNA-seq. Description: Gorochowski, Thomas E, et al. Genetic circuit characterization and debugging using RNA-seq. ''Mol Syst Biol''. 2017 Nov 9; '''13''' (11):952
Structure-Based Design of Non-natural Macrocyclic Peptides That Inhibit Protein-Protein Interactions. Description: Kruger, Dennis M, et al. Structure-Based Design of Non-natural Macrocyclic Peptides That Inhibit Protein-Protein Interactions. ''J Med Chem''. 2017 Nov 9; '''60''' (21):8982-8988
pgRNAFinder: a web-based tool to design distance independent paired-gRNA. Description: Xiong, Yuanyan, et al. pgRNAFinder: a web-based tool to design distance independent paired-gRNA. ''Bioinformatics''. 2017 Nov 15; '''33''' (22):3642-3644
Developmental excitatory-to-inhibitory GABA-polarity switch is disrupted in 22q11.2 deletion syndrome: a potential target for clinical therapeutics. Description: Amin, Hayder, et al. Developmental excitatory-to-inhibitory GABA-polarity switch is disrupted in 22q11.2 deletion syndrome: a potential target for clinical therapeutics. ''Sci Rep''. 2017 Nov 16; '''7''' (1):15752
Genomic data reveal a loss of diversity in two species of tuco-tucos (genus Ctenomys) following a volcanic eruption. Description: Hsu, Jeremy L, et al. Genomic data reveal a loss of diversity in two species of tuco-tucos (genus Ctenomys) following a volcanic eruption. ''Sci Rep''. 2017 Nov 24; '''7''' (1):16227
Protein crowding and lipid complexity influence the nanoscale dynamic organization of ion channels in cell membranes. Description: Duncan, Anna L, et al. Protein crowding and lipid complexity influence the nanoscale dynamic organization of ion channels in cell membranes. ''Sci Rep''. 2017 Nov 30; '''7''' (1):16647
Aurora Kinase B, a novel regulator of TERF1 binding and telomeric integrity. Description: Chan, Foong Lyn, et al. Aurora Kinase B, a novel regulator of TERF1 binding and telomeric integrity. ''Nucleic Acids Res''. 2017 Dec 1; '''45''' (21):12340-12353
Microbial community compositions in the gastrointestinal tract of Chinese Mongolian sheep using Illumina MiSeq sequencing revealed high microbial diversity. Description: Zeng, Yan, et al. Microbial community compositions in the gastrointestinal tract of Chinese Mongolian sheep using Illumina MiSeq sequencing revealed high microbial diversity. ''AMB Express''. 2017 Dec; '''7''' (1):75
Consideration of non-canonical splice sites improves gene prediction on the Arabidopsis thaliana Niederzenz-1 genome sequence. Description: Pucker, Boas, et al. Consideration of non-canonical splice sites improves gene prediction on the Arabidopsis thaliana Niederzenz-1 genome sequence. ''BMC Res Notes''. 2017 Dec 4; '''10''' (1):667
Modulation of Global Transcriptional Regulatory Networks as a Strategy for Increasing Kanamycin Resistance of the Translational Elongation Factor-G Mutants in Escherichia coli. Description: Mogre, Aalap, et al. Modulation of Global Transcriptional Regulatory Networks as a Strategy for Increasing Kanamycin Resistance of the Translational Elongation Factor-G Mutants in Escherichia coli. ''G3 (Bethesda)''. 2017 Dec 4; '''7''' (12):3955-3966
Synaptic and peptidergic connectome of a neurosecretory center in the annelid brain. Description: Williams, Elizabeth A, et al. Synaptic and peptidergic connectome of a neurosecretory center in the annelid brain. ''Elife''. 2017 Dec 4; '''6''':
Comparative Genomic Analysis and In Vivo Modeling of Streptococcus pneumoniae ST3081 and ST618 Isolates Reveal Key Genetic and Phenotypic Differences Contributing to Clonal Replacement of Serotype 1 in The Gambia. Description: Bricio-Moreno, Laura, et al. Comparative Genomic Analysis and In Vivo Modeling of Streptococcus pneumoniae ST3081 and ST618 Isolates Reveal Key Genetic and Phenotypic Differences Contributing to Clonal Replacement of Serotype 1 in The Gambia. ''J Infect Dis''. 2017 Dec 5; '''216''' (10):1318-1327
CONSTAX: a tool for improved taxonomic resolution of environmental fungal ITS sequences. Description: Gdanetz, Kristi, et al. CONSTAX: a tool for improved taxonomic resolution of environmental fungal ITS sequences. ''BMC Bioinformatics''. 2017 Dec 6; '''18''' (1):538
Alternative dominance of the parental genomes in hybrid cells generated through the fusion of mouse embryonic stem cells with fibroblasts. Description: Matveeva, Natalia M, et al. Alternative dominance of the parental genomes in hybrid cells generated through the fusion of mouse embryonic stem cells with fibroblasts. ''Sci Rep''. 2017 Dec 22; '''7''' (1):18094
A comparison of genotyping-by-sequencing analysis methods on low-coverage crop datasets shows advantages of a new workflow, GB-eaSy. Description: Wickland, Daniel P, et al. A comparison of genotyping-by-sequencing analysis methods on low-coverage crop datasets shows advantages of a new workflow, GB-eaSy. ''BMC Bioinformatics''. 2017 Dec 28; '''18''' (1):586
A computational reconstruction of Papio phylogeny using Alu insertion polymorphisms. Description: Jordan, Vallmer E, et al. A computational reconstruction of Papio phylogeny using Alu insertion polymorphisms. ''Mob DNA''. 2018; '''9''': 13
A Knowledge-Based Arrangement of Prototypical Neural Representation Prior to Experience Contributes to Selectivity in Upcoming Knowledge Acquisition. Description: Kurashige, Hiroki, et al. A Knowledge-Based Arrangement of Prototypical Neural Representation Prior to Experience Contributes to Selectivity in Upcoming Knowledge Acquisition. ''Front Hum Neurosci''. 2018; '''12''': 111
Analysis of ParAB dynamics in mycobacteria shows active movement of ParB and differential inheritance of ParA. Description: Uhia, Iria, et al. Analysis of ParAB dynamics in mycobacteria shows active movement of ParB and differential inheritance of ParA. ''PLoS One''. 2018; '''13''' (6):e0199316
Andrographolide Inhibits Mechanical and Thermal Hyperalgesia in a Rat Model of HIV-Induced Neuropathic Pain. Description: Yi, Zhihua, et al. Andrographolide Inhibits Mechanical and Thermal Hyperalgesia in a Rat Model of HIV-Induced Neuropathic Pain. ''Front Pharmacol''. 2018; '''9''': 593
A Pseudomonas putida efflux pump acts on short-chain alcohols. Description: Basler, Georg, et al. A Pseudomonas putida efflux pump acts on short-chain alcohols. ''Biotechnol Biofuels''. 2018; '''11''': 136
Astrocytic Atrophy Following Status Epilepticus Parallels Reduced Ca(2+) Activity and Impaired Synaptic Plasticity in the Rat Hippocampus. Description: Plata, Alex, et al. Astrocytic Atrophy Following Status Epilepticus Parallels Reduced Ca(2+) Activity and Impaired Synaptic Plasticity in the Rat Hippocampus. ''Front Mol Neurosci''. 2018; '''11''': 215
A systematic atlas of chaperome deregulation topologies across the human cancer landscape. Description: Hadizadeh Esfahani, Ali, et al. A systematic atlas of chaperome deregulation topologies across the human cancer landscape. ''PLoS Comput Biol''. 2018 Jan; '''14''' (1):e1005890
Binding affinities of the farnesoid X receptor in the D3R Grand Challenge 2 estimated by free-energy perturbation and docking. Description: Olsson, Martin A, et al. Binding affinities of the farnesoid X receptor in the D3R Grand Challenge 2 estimated by free-energy perturbation and docking. ''J Comput Aided Mol Des''. 2018 Jan; '''32''' (1):211-224
Calculation of 3D genome structures for comparison of chromosome conformation capture experiments with microscopy: An evaluation of single-cell Hi-C protocols. Description: Lando, David, et al. Calculation of 3D genome structures for comparison of chromosome conformation capture experiments with microscopy: An evaluation of single-cell Hi-C protocols. ''Nucleus''. 2018 Jan 1; '''9''' (1):190-201
Characterization of genetic changes associated with daptomycin nonsusceptibility in Staphylococcus aureus. Description: Ma, Zhuo, et al. Characterization of genetic changes associated with daptomycin nonsusceptibility in Staphylococcus aureus. ''PLoS One''. 2018; '''13''' (6):e0198366
Comparative analysis of genetic diversity and differentiation of cauliflower (Brassica oleracea var. botrytis) accessions from two ex situ genebanks. Description: Yousef, Eltohamy A A, et al. Comparative analysis of genetic diversity and differentiation of cauliflower (Brassica oleracea var. botrytis) accessions from two ex situ genebanks. ''PLoS One''. 2018; '''13''' (2):e0192062
Deploying a Proximal Sensing Cart to Identify Drought-Adaptive Traits in Upland Cotton for High-Throughput Phenotyping. Description: Thompson, Alison L, et al. Deploying a Proximal Sensing Cart to Identify Drought-Adaptive Traits in Upland Cotton for High-Throughput Phenotyping. ''Front Plant Sci''. 2018; '''9''': 507
Designing miRNA-Based Synthetic Cell Classifier Circuits Using Answer Set Programming. Description: Becker, Katinka, et al. Designing miRNA-Based Synthetic Cell Classifier Circuits Using Answer Set Programming. ''Front Bioeng Biotechnol''. 2018; '''6''': 70
Distribution Patterns of Polyphosphate Metabolism Pathway and Its Relationships With Bacterial Durability and Virulence. Description: Wang, Liang, et al. Distribution Patterns of Polyphosphate Metabolism Pathway and Its Relationships With Bacterial Durability and Virulence. ''Front Microbiol''. 2018; '''9''': 782
Does bibliometric research confer legitimacy to research assessment practice? A sociological study of reputational control, 1972-2016. Description: Jappe, Arlette, et al. Does bibliometric research confer legitimacy to research assessment practice? A sociological study of reputational control, 1972-2016. ''PLoS One''. 2018; '''13''' (6):e0199031
Engineering peptide ligase specificity by proteomic identification of ligation sites. Description: Weeks, Amy M, et al. Engineering peptide ligase specificity by proteomic identification of ligation sites. ''Nat Chem Biol''. 2018 Jan; '''14''' (1):50-57
Evolution and Diversity of Biosynthetic Gene Clusters in Fusarium. Description: Hoogendoorn, Koen, et al. Evolution and Diversity of Biosynthetic Gene Clusters in Fusarium. ''Front Microbiol''. 2018; '''9''': 1158
High-throughput evaluation of T7 promoter variants using biased randomization and DNA barcoding. Description: Komura, Ryo, et al. High-throughput evaluation of T7 promoter variants using biased randomization and DNA barcoding. ''PLoS One''. 2018; '''13''' (5):e0196905
Identification and Functional Analysis of Long Intergenic Non-coding RNAs Underlying Intramuscular Fat Content in Pigs. Description: Zou, Cheng, et al. Identification and Functional Analysis of Long Intergenic Non-coding RNAs Underlying Intramuscular Fat Content in Pigs. ''Front Genet''. 2018; '''9''': 102
Inorganic Polyphosphate Is Essential for Salmonella Typhimurium Virulence and Survival in Dictyostelium discoideum. Description: Varas, Macarena A, et al. Inorganic Polyphosphate Is Essential for Salmonella Typhimurium Virulence and Survival in Dictyostelium discoideum. ''Front Cell Infect Microbiol''. 2018; '''8''': 8
Long non-coding RNAs and mRNAs profiling during spleen development in pig. Description: Che, Tiandong, et al. Long non-coding RNAs and mRNAs profiling during spleen development in pig. ''PLoS One''. 2018; '''13''' (3):e0193552
Method for the Identification of Taxon-Specific k-mers from Chloroplast Genome: A Case Study on Tomato Plant (Solanum lycopersicum). Description: Raime, Kairi, et al. Method for the Identification of Taxon-Specific k-mers from Chloroplast Genome: A Case Study on Tomato Plant (Solanum lycopersicum). ''Front Plant Sci''. 2018; '''9''': 6
Microbiome of Total Versus Live Bacteria in the Gut of Rex Rabbits. Description: Fu, Xiangchao, et al. Microbiome of Total Versus Live Bacteria in the Gut of Rex Rabbits. ''Front Microbiol''. 2018; '''9''': 733
Mouse Models of Influenza Infection with Circulating Strains to Test Seasonal Vaccine Efficacy. Description: Groves, Helen T, et al. Mouse Models of Influenza Infection with Circulating Strains to Test Seasonal Vaccine Efficacy. ''Front Immunol''. 2018; '''9''': 126
Predicting potential drug-drug interactions on topological and semantic similarity features using statistical learning. Description: Kastrin, Andrej, et al. Predicting potential drug-drug interactions on topological and semantic similarity features using statistical learning. ''PLoS One''. 2018; '''13''' (5):e0196865
Reconciling species diversity in a tropical plant clade (Canarium, Burseraceae). Description: Federman, Sarah, et al. Reconciling species diversity in a tropical plant clade (Canarium, Burseraceae). ''PLoS One''. 2018; '''13''' (6):e0198882
Staphylococcus aureus viewed from the perspective of 40,000+ genomes. Description: Petit, Robert A 3rd, et al. Staphylococcus aureus viewed from the perspective of 40,000+ genomes. ''PeerJ''. 2018; '''6''': e5261
The analysis of genome composition and codon bias reveals distinctive patterns between avian and mammalian circoviruses which suggest a potential recombinant origin for Porcine circovirus 3. Description: Franzo, Giovanni, et al. The analysis of genome composition and codon bias reveals distinctive patterns between avian and mammalian circoviruses which suggest a potential recombinant origin for Porcine circovirus 3. ''PLoS One''. 2018; '''13''' (6):e0199950
The dynamic intein landscape of eukaryotes. Description: Green, Cathleen M, et al. The dynamic intein landscape of eukaryotes. ''Mob DNA''. 2018; '''9''': 4
Transcription-Associated Compositional Skews in Drosophila Genes. Description: Bergman, Juraj, et al. Transcription-Associated Compositional Skews in Drosophila Genes. ''Genome Biol Evol''. 2018 Jan 1; '''10''' (1):269-275
Transcriptome reprogramming of resistant and susceptible peach genotypes during Xanthomonas arboricola pv. pruni early leaf infection. Description: Gervasi, Fabio, et al. Transcriptome reprogramming of resistant and susceptible peach genotypes during Xanthomonas arboricola pv. pruni early leaf infection. ''PLoS One''. 2018; '''13''' (4):e0196590
VariantValidator: Accurate validation, mapping, and formatting of sequence variation descriptions. Description: Freeman, Peter J, et al. VariantValidator: Accurate validation, mapping, and formatting of sequence variation descriptions. ''Hum Mutat''. 2018 Jan; '''39''' (1):61-68
STAT5BN642H is a driver mutation for T cell neoplasia. Description: Pham, Ha Thi Thanh, et al. STAT5BN642H is a driver mutation for T cell neoplasia. ''J Clin Invest''. 2018 Jan 2; '''128''' (1):387-401
The Microbe Directory: An annotated, searchable inventory of microbes' characteristics. Description: Shaaban, Heba, et al. The Microbe Directory: An annotated, searchable inventory of microbes' characteristics. ''Gates Open Res''. 2018 Jan 5; '''2''': 3
Designable and dynamic single-walled stiff nanotubes assembled from sequence-defined peptoids. Description: Jin, Haibao, et al. Designable and dynamic single-walled stiff nanotubes assembled from sequence-defined peptoids. ''Nat Commun''. 2018 Jan 18; '''9''' (1):270
Functional role of the type 1 pilus rod structure in mediating host-pathogen interactions. Description: Spaulding, Caitlin N, et al. Functional role of the type 1 pilus rod structure in mediating host-pathogen interactions. ''Elife''. 2018 Jan 18; '''7''':
PTRE-seq reveals mechanism and interactions of RNA binding proteins and miRNAs. Description: Cottrell, Kyle A, et al. PTRE-seq reveals mechanism and interactions of RNA binding proteins and miRNAs. ''Nat Commun''. 2018 Jan 19; '''9''' (1):301
Isolation and characterization of novel mutations in the pSC101 origin that increase copy number. Description: Thompson, Mitchell G, et al. Isolation and characterization of novel mutations in the pSC101 origin that increase copy number. ''Sci Rep''. 2018 Jan 25; '''8''' (1):1590
Large scale analysis of protein conformational transitions from aqueous to non-aqueous media. Description: Rueda, Ana Julia Velez, et al. Large scale analysis of protein conformational transitions from aqueous to non-aqueous media. ''BMC Bioinformatics''. 2018 Jan 30; '''19''' (1):27
Analysis of essential gene dynamics under antibiotic stress in Streptococcus sanguinis. Description: El-Rami, Fadi, et al. Analysis of essential gene dynamics under antibiotic stress in Streptococcus sanguinis. ''Microbiology''. 2018 Feb; '''164''' (2):173-185
Compositional shifts in root-associated bacterial and archaeal microbiota track the plant life cycle in field-grown rice. Description: Edwards, Joseph A, et al. Compositional shifts in root-associated bacterial and archaeal microbiota track the plant life cycle in field-grown rice. ''PLoS Biol''. 2018 Feb; '''16''' (2):e2003862
Emergence of Double- and Triple-Gene Reassortant G1P[8] Rotaviruses Possessing a DS-1-Like Backbone after Rotavirus Vaccine Introduction in Malawi. Description: Jere, Khuzwayo C, et al. Emergence of Double- and Triple-Gene Reassortant G1P[8] Rotaviruses Possessing a DS-1-Like Backbone after Rotavirus Vaccine Introduction in Malawi. ''J Virol''. 2018 Feb 1; '''92''' (3):
Genomic basis and evolutionary potential for extreme drought adaptation in Arabidopsis thaliana. Description: Exposito-Alonso, Moises, et al. Genomic basis and evolutionary potential for extreme drought adaptation in Arabidopsis thaliana. ''Nat Ecol Evol''. 2018 Feb; '''2''' (2):352-358
Single-Base Resolution Map of Evolutionary Constraints and Annotation of Conserved Elements across Major Grass Genomes. Description: Liang, Pingping, et al. Single-Base Resolution Map of Evolutionary Constraints and Annotation of Conserved Elements across Major Grass Genomes. ''Genome Biol Evol''. 2018 Feb 1; '''10''' (2):473-488
Transposon-derived small RNAs triggered by miR845 mediate genome dosage response in Arabidopsis. Description: Borges, Filipe, et al. Transposon-derived small RNAs triggered by miR845 mediate genome dosage response in Arabidopsis. ''Nat Genet''. 2018 Feb; '''50''' (2):186-192
Genomic Prediction and Association Mapping of Curd-Related Traits in Gene Bank Accessions of Cauliflower. Description: Thorwarth, Patrick, et al. Genomic Prediction and Association Mapping of Curd-Related Traits in Gene Bank Accessions of Cauliflower. ''G3 (Bethesda)''. 2018 Feb 2; '''8''' (2):707-718
XIST Derepression in Active X Chromosome Hinders Pig Somatic Cell Nuclear Transfer. Description: Ruan, Degong, et al. XIST Derepression in Active X Chromosome Hinders Pig Somatic Cell Nuclear Transfer. ''Stem Cell Reports''. 2018 Feb 13; '''10''' (2):494-508
Single-cell transcriptional dynamics of flavivirus infection. Description: Zanini, Fabio, et al. Single-cell transcriptional dynamics of flavivirus infection. ''Elife''. 2018 Feb 16; '''7''':
Genome-scale examination of NBS-encoding genes in blueberry. Description: Die, Jose V, et al. Genome-scale examination of NBS-encoding genes in blueberry. ''Sci Rep''. 2018 Feb 21; '''8''' (1):3429
Representations of naturalistic stimulus complexity in early and associative visual and auditory cortices. Description: Gucluturk, Yagmur, et al. Representations of naturalistic stimulus complexity in early and associative visual and auditory cortices. ''Sci Rep''. 2018 Feb 21; '''8''' (1):3439
RaMP: A Comprehensive Relational Database of Metabolomics Pathways for Pathway Enrichment Analysis of Genes and Metabolites. Description: Zhang, Bofei, et al. RaMP: A Comprehensive Relational Database of Metabolomics Pathways for Pathway Enrichment Analysis of Genes and Metabolites. ''Metabolites''. 2018 Feb 22; '''8''' (1):
Gene Flow between Divergent Cereal- and Grass-Specific Lineages of the Rice Blast Fungus Magnaporthe oryzae. Description: Gladieux, Pierre, et al. Gene Flow between Divergent Cereal- and Grass-Specific Lineages of the Rice Blast Fungus Magnaporthe oryzae. ''mBio''. 2018 Feb 27; '''9''' (1):
A synthetic biology approach for consistent production of plant-made recombinant polyclonal antibodies against snake venom toxins. Description: Julve Parreno, Jose Manuel, et al. A synthetic biology approach for consistent production of plant-made recombinant polyclonal antibodies against snake venom toxins. ''Plant Biotechnol J''. 2018 Mar; '''16''' (3):727-736
Discovery of genomic intervals that underlie nematode responses to benzimidazoles. Description: Zamanian, Mostafa, et al. Discovery of genomic intervals that underlie nematode responses to benzimidazoles. ''PLoS Negl Trop Dis''. 2018 Mar; '''12''' (3):e0006368
Fine-Scale Recombination Maps of Fungal Plant Pathogens Reveal Dynamic Recombination Landscapes and Intragenic Hotspots. Description: Stukenbrock, Eva H, et al. Fine-Scale Recombination Maps of Fungal Plant Pathogens Reveal Dynamic Recombination Landscapes and Intragenic Hotspots. ''Genetics''. 2018 Mar; '''208''' (3):1209-1229
Molecularly barcoded Zika virus libraries to probe in vivo evolutionary dynamics. Description: Aliota, Matthew T, et al. Molecularly barcoded Zika virus libraries to probe in vivo evolutionary dynamics. ''PLoS Pathog''. 2018 Mar; '''14''' (3):e1006964
Quantitative investigation of linear arbitrary polarization in an APPLE-II undulator. Description: Hand, Matthew, et al. Quantitative investigation of linear arbitrary polarization in an APPLE-II undulator. ''J Synchrotron Radiat''. 2018 Mar 1; '''25''' (Pt 2):378-384
The genomic and ecological context of hybridization affects the probability that symmetrical incompatibilities drive hybrid speciation. Description: Comeault, Aaron A. The genomic and ecological context of hybridization affects the probability that symmetrical incompatibilities drive hybrid speciation. ''Ecol Evol''. 2018 Mar; '''8''' (5):2926-2937
A CREB2-targeting microRNA is required for long-term memory after single-trial learning. Description: Korneev, Sergei A, et al. A CREB2-targeting microRNA is required for long-term memory after single-trial learning. ''Sci Rep''. 2018 Mar 2; '''8''' (1):3950
The Genomes of Four Meyerozyma caribbica Isolates and Novel Insights into the Meyerozyma guilliermondii Species Complex. Description: De Marco, Leone, et al. The Genomes of Four Meyerozyma caribbica Isolates and Novel Insights into the Meyerozyma guilliermondii Species Complex. ''G3 (Bethesda)''. 2018 Mar 2; '''8''' (3):755-759
Herbivorous turtle ants obtain essential nutrients from a conserved nitrogen-recycling gut microbiome. Description: Hu, Yi, et al. Herbivorous turtle ants obtain essential nutrients from a conserved nitrogen-recycling gut microbiome. ''Nat Commun''. 2018 Mar 6; '''9''' (1):964
OligoMiner provides a rapid, flexible environment for the design of genome-scale oligonucleotide in situ hybridization probes. Description: Beliveau, Brian J, et al. OligoMiner provides a rapid, flexible environment for the design of genome-scale oligonucleotide in situ hybridization probes. ''Proc Natl Acad Sci U S A''. 2018 Mar 6; '''115''' (10):E2183-E2192
Structure of full-length human TRPM4. Description: Duan, Jingjing, et al. Structure of full-length human TRPM4. ''Proc Natl Acad Sci U S A''. 2018 Mar 6; '''115''' (10):2377-2382
Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides. Description: Coradetti, Samuel T, et al. Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides. ''Elife''. 2018 Mar 9; '''7''':
IMPPAT: A curated database of Indian Medicinal Plants, Phytochemistry And Therapeutics. Description: Mohanraj, Karthikeyan, et al. IMPPAT: A curated database of Indian Medicinal Plants, Phytochemistry And Therapeutics. ''Sci Rep''. 2018 Mar 12; '''8''' (1):4329
Circular DNA elements of chromosomal origin are common in healthy human somatic tissue. Description: Moller, Henrik Devitt, et al. Circular DNA elements of chromosomal origin are common in healthy human somatic tissue. ''Nat Commun''. 2018 Mar 14; '''9''' (1):1069
Demonstration of the potential of environmental DNA as a tool for the detection of avian species. Description: Ushio, Masayuki, et al. Demonstration of the potential of environmental DNA as a tool for the detection of avian species. ''Sci Rep''. 2018 Mar 14; '''8''' (1):4493
RecA requires two molecules of Mg2+ ions for its optimal strand exchange activity in vitro. Description: Kim, Raeyeong, et al. RecA requires two molecules of Mg2+ ions for its optimal strand exchange activity in vitro. ''Nucleic Acids Res''. 2018 Mar 16; '''46''' (5):2548-2559
A Mediterranean coastal database for assessing the impacts of sea-level rise and associated hazards. Description: Wolff, Claudia, et al. A Mediterranean coastal database for assessing the impacts of sea-level rise and associated hazards. ''Sci Data''. 2018 Mar 27; '''5''': 180044
Integrative analysis reveals ncRNA-mediated molecular regulatory network driving secondary hair follicle regression in cashmere goats. Description: Zhou, Guangxian, et al. Integrative analysis reveals ncRNA-mediated molecular regulatory network driving secondary hair follicle regression in cashmere goats. ''BMC Genomics''. 2018 Mar 27; '''19''' (1):222
Full-length mRNA sequencing uncovers a widespread coupling between transcription initiation and mRNA processing. Description: Anvar, Seyed Yahya, et al. Full-length mRNA sequencing uncovers a widespread coupling between transcription initiation and mRNA processing. ''Genome Biol''. 2018 Mar 29; '''19''' (1):46
Plastid Transcript Editing across Dinoflagellate Lineages Shows Lineage-Specific Application but Conserved Trends. Description: Klinger, Christen M, et al. Plastid Transcript Editing across Dinoflagellate Lineages Shows Lineage-Specific Application but Conserved Trends. ''Genome Biol Evol''. 2018 Apr 1; '''10''' (4):1019-1038
Human Sertoli cells support high levels of Zika virus replication and persistence. Description: Kumar, Anil, et al. Human Sertoli cells support high levels of Zika virus replication and persistence. ''Sci Rep''. 2018 Apr 3; '''8''' (1):5477
Incorporation of bridged nucleic acids into CRISPR RNAs improves Cas9 endonuclease specificity. Description: Cromwell, Christopher R, et al. Incorporation of bridged nucleic acids into CRISPR RNAs improves Cas9 endonuclease specificity. ''Nat Commun''. 2018 Apr 13; '''9''' (1):1448
Matrix stiffness controls lymphatic vessel formation through regulation of a GATA2-dependent transcriptional program. Description: Frye, Maike, et al. Matrix stiffness controls lymphatic vessel formation through regulation of a GATA2-dependent transcriptional program. ''Nat Commun''. 2018 Apr 17; '''9''' (1):1511
Microbiota and Metatranscriptome Changes Accompanying the Onset of Gingivitis. Description: Nowicki, Emily M, et al. Microbiota and Metatranscriptome Changes Accompanying the Onset of Gingivitis. ''mBio''. 2018 Apr 17; '''9''' (2):
Proton-decoupled carbon magnetic resonance spectroscopy in human calf muscles at 7 T using a multi-channel radiofrequency coil. Description: Goluch, Sigrun, et al. Proton-decoupled carbon magnetic resonance spectroscopy in human calf muscles at 7 T using a multi-channel radiofrequency coil. ''Sci Rep''. 2018 Apr 18; '''8''' (1):6211
N4-cytosine DNA methylation regulates transcription and pathogenesis in Helicobacter pylori. Description: Kumar, Sumith, et al. N4-cytosine DNA methylation regulates transcription and pathogenesis in Helicobacter pylori. ''Nucleic Acids Res''. 2018 Apr 20; '''46''' (7):3429-3445
Evolution of high-level resistance during low-level antibiotic exposure. Description: Wistrand-Yuen, Erik, et al. Evolution of high-level resistance during low-level antibiotic exposure. ''Nat Commun''. 2018 Apr 23; '''9''' (1):1599
Quantifying the connections-linkages between land-use and water in the Kathmandu Valley, Nepal. Description: Davids, Jeffrey C, et al. Quantifying the connections-linkages between land-use and water in the Kathmandu Valley, Nepal. ''Environ Monit Assess''. 2018 Apr 23; '''190''' (5):304
Integrative analysis and machine learning on cancer genomics data using the Cancer Systems Biology Database (CancerSysDB). Description: Krempel, Rasmus, et al. Integrative analysis and machine learning on cancer genomics data using the Cancer Systems Biology Database (CancerSysDB). ''BMC Bioinformatics''. 2018 Apr 24; '''19''' (1):156
Action and object words are differentially anchored in the sensory motor system - A perspective on cognitive embodiment. Description: Horoufchin, Houpand, et al. Action and object words are differentially anchored in the sensory motor system - A perspective on cognitive embodiment. ''Sci Rep''. 2018 Apr 26; '''8''' (1):6583
Genome-wide identification of the auxin response factor gene family in Cicer arietinum. Description: Die, Jose V, et al. Genome-wide identification of the auxin response factor gene family in Cicer arietinum. ''BMC Genomics''. 2018 Apr 27; '''19''' (1):301
Genomic insights into natural selection in the common loon (Gavia immer): evidence for aquatic adaptation. Description: Gayk, Zach G, et al. Genomic insights into natural selection in the common loon (Gavia immer): evidence for aquatic adaptation. ''BMC Evol Biol''. 2018 Apr 27; '''18''' (1):64
Geographical distribution of zooplankton biodiversity in highly polluted running water ecosystems: Validation of fine-scale species sorting hypothesis. Description: Yang, Yuzhan, et al. Geographical distribution of zooplankton biodiversity in highly polluted running water ecosystems: Validation of fine-scale species sorting hypothesis. ''Ecol Evol''. 2018 May; '''8''' (10):4830-4840
Characterization of a Microbial Consortium for the Bioremoval of Polycyclic Aromatic Hydrocarbons (PAHs) in Water. Description: Blanco-Enriquez, Esmeralda G, et al. Characterization of a Microbial Consortium for the Bioremoval of Polycyclic Aromatic Hydrocarbons (PAHs) in Water. ''Int J Environ Res Public Health''. 2018 May 13; '''15''' (5):
A collection of public transport network data sets for 25 cities. Description: Kujala, Rainer, et al. A collection of public transport network data sets for 25 cities. ''Sci Data''. 2018 May 15; '''5''': 180089
Changes in genome organization of parasite-specific gene families during the Plasmodium transmission stages. Description: Bunnik, Evelien M, et al. Changes in genome organization of parasite-specific gene families during the Plasmodium transmission stages. ''Nat Commun''. 2018 May 15; '''9''' (1):1910
Gravisensors in plant cells behave like an active granular liquid. Description: Berut, Antoine, et al. Gravisensors in plant cells behave like an active granular liquid. ''Proc Natl Acad Sci U S A''. 2018 May 15; '''115''' (20):5123-5128
The Impact of Caloric and Non-Caloric Sweeteners on Food Intake and Brain Responses to Food: A Randomized Crossover Controlled Trial in Healthy Humans. Description: Creze, Camille, et al. The Impact of Caloric and Non-Caloric Sweeteners on Food Intake and Brain Responses to Food: A Randomized Crossover Controlled Trial in Healthy Humans. ''Nutrients''. 2018 May 15; '''10''' (5):
Novel internal regulators and candidate miRNAs within miR-379/miR-656 miRNA cluster can alter cellular phenotype of human glioblastoma. Description: Nayak, Subhashree, et al. Novel internal regulators and candidate miRNAs within miR-379/miR-656 miRNA cluster can alter cellular phenotype of human glioblastoma. ''Sci Rep''. 2018 May 16; '''8''' (1):7673
Combining amplicon sequencing and metabolomics in cirrhotic patients highlights distinctive microbiota features involved in bacterial translocation, systemic inflammation and hepatic encephalopathy. Description: Iebba, Valerio, et al. Combining amplicon sequencing and metabolomics in cirrhotic patients highlights distinctive microbiota features involved in bacterial translocation, systemic inflammation and hepatic encephalopathy. ''Sci Rep''. 2018 May 29; '''8''' (1):8210
Genome-wide microRNA screening in Nile tilapia reveals pervasive isomiRs' transcription, sex-biased arm switching and increasing complexity of expression throughout development. Description: Pinhal, Danillo, et al. Genome-wide microRNA screening in Nile tilapia reveals pervasive isomiRs' transcription, sex-biased arm switching and increasing complexity of expression throughout development. ''Sci Rep''. 2018 May 29; '''8''' (1):8248
Identification and analysis of ribosome-associated lncRNAs using ribosome profiling data. Description: Zeng, Chao, et al. Identification and analysis of ribosome-associated lncRNAs using ribosome profiling data. ''BMC Genomics''. 2018 May 29; '''19''' (1):414
A reference genome of the European beech (Fagus sylvatica L.). Description: Mishra, Bagdevi, et al. A reference genome of the European beech (Fagus sylvatica L.). ''Gigascience''. 2018 Jun 1; '''7''' (6):
Discovery of Lineage-Specific Genome Change in Rice Through Analysis of Resequencing Data. Description: Arthur, Robert A, et al. Discovery of Lineage-Specific Genome Change in Rice Through Analysis of Resequencing Data. ''Genetics''. 2018 Jun; '''209''' (2):617-626
Dynamic multivoxel-localized (31) P MRS during plantar flexion exercise with variable knee angle. Description: Niess, Fabian, et al. Dynamic multivoxel-localized (31) P MRS during plantar flexion exercise with variable knee angle. ''NMR Biomed''. 2018 Jun; '''31''' (6):e3905
Evolution and Diversity of Pre-mRNA Splicing in Highly Reduced Nucleomorph Genomes. Description: Wong, Donald K, et al. Evolution and Diversity of Pre-mRNA Splicing in Highly Reduced Nucleomorph Genomes. ''Genome Biol Evol''. 2018 Jun 1; '''10''' (6):1573-1583
Insights into the structural dynamics of the bacteriophage T7 DNA polymerase and its complexes. Description: Magill, Damian J, et al. Insights into the structural dynamics of the bacteriophage T7 DNA polymerase and its complexes. ''J Mol Model''. 2018 Jun 1; '''24''' (7):144
The Role of the Size and Location of the Tumors and of the Vertebral Anatomy in Determining the Structural Stability of the Metastatically Involved Spine: a Finite Element Study. Description: Galbusera, Fabio, et al. The Role of the Size and Location of the Tumors and of the Vertebral Anatomy in Determining the Structural Stability of the Metastatically Involved Spine: a Finite Element Study. ''Transl Oncol''. 2018 Jun; '''11''' (3):639-646
Epigenetic silencing of miR-1271 enhances MEK1 and TEAD4 expression in gastric cancer. Description: Lim, Byungho, et al. Epigenetic silencing of miR-1271 enhances MEK1 and TEAD4 expression in gastric cancer. ''Cancer Med''. 2018 Jun 4;
Automated Recognition of RNA Structure Motifs by Their SHAPE Data Signatures. Description: Radecki, Pierce, et al. Automated Recognition of RNA Structure Motifs by Their SHAPE Data Signatures. ''Genes (Basel)''. 2018 Jun 14; '''9''' (6):
Absolute quantitation of microbiota abundance in environmental samples. Description: Tkacz, Andrzej, et al. Absolute quantitation of microbiota abundance in environmental samples. ''Microbiome''. 2018 Jun 19; '''6''' (1):110
Comparative analysis of binding patterns of MADS-domain proteins in Arabidopsis thaliana. Description: Aerts, Niels, et al. Comparative analysis of binding patterns of MADS-domain proteins in Arabidopsis thaliana. ''BMC Plant Biol''. 2018 Jun 25; '''18''' (1):131
Omics approaches revealed how arbuscular mycorrhizal symbiosis enhances yield and resistance to leaf pathogen in wheat. Description: Fiorilli, Valentina, et al. Omics approaches revealed how arbuscular mycorrhizal symbiosis enhances yield and resistance to leaf pathogen in wheat. ''Sci Rep''. 2018 Jun 25; '''8''' (1):9625
Synthetic CRISPR-Cas gene activators for transcriptional reprogramming in bacteria. Description: Dong, Chen, et al. Synthetic CRISPR-Cas gene activators for transcriptional reprogramming in bacteria. ''Nat Commun''. 2018 Jun 27; '''9''' (1):2489
Uncovering hidden brain state dynamics that regulate performance and decision-making during cognition. Description: Taghia, Jalil, et al. Uncovering hidden brain state dynamics that regulate performance and decision-making during cognition. ''Nat Commun''. 2018 Jun 27; '''9''' (1):2505
Estimating Improved Partitioning Schemes for Ultraconserved Elements. Description: Tagliacollo, Victor A, et al. Estimating Improved Partitioning Schemes for Ultraconserved Elements. ''Mol Biol Evol''. 2018 Jul 1; '''35''' (7):1798-1811
Patterns of Nucleotide Deletion and Insertion Inferred from Bacterial Pseudogenes. Description: Danneels, Bram, et al. Patterns of Nucleotide Deletion and Insertion Inferred from Bacterial Pseudogenes. ''Genome Biol Evol''. 2018 Jul 1; '''10''' (7):1792-1802
Assessment of an Organ-Specific de Novo Transcriptome of the Nematode Trap-Crop, Solanum sisymbriifolium. Description: Wixom, Alexander Q, et al. Assessment of an Organ-Specific de Novo Transcriptome of the Nematode Trap-Crop, Solanum sisymbriifolium. ''G3 (Bethesda)''. 2018 Jul 2; '''8''' (7):2135-2143
Tissue-Specific Transcriptome for Poeciliopsis prolifica Reveals Evidence for Genetic Adaptation Related to the Evolution of a Placental Fish. Description: Jue, Nathaniel K, et al. Tissue-Specific Transcriptome for Poeciliopsis prolifica Reveals Evidence for Genetic Adaptation Related to the Evolution of a Placental Fish. ''G3 (Bethesda)''. 2018 Jul 2; '''8''' (7):2181-2192
Genome-Wide Surveillance of Genital Herpes Simplex Virus Type 1 From Multiple Anatomic Sites Over Time. Description: Shipley, Mackenzie M, et al. Genome-Wide Surveillance of Genital Herpes Simplex Virus Type 1 From Multiple Anatomic Sites Over Time. ''J Infect Dis''. 2018 Jul 13; '''218''' (4):595-605
An integrative, multi-omics approach towards the prioritization of Klebsiella pneumoniae drug targets. Description: Ramos, Pablo Ivan Pereira, et al. An integrative, multi-omics approach towards the prioritization of Klebsiella pneumoniae drug targets. ''Sci Rep''. 2018 Jul 17; '''8''' (1):10755
A potentially abundant junctional RNA motif stabilized by m(6)A and Mg(2). Description: Liu, Bei, et al. A potentially abundant junctional RNA motif stabilized by m(6)A and Mg(2). ''Nat Commun''. 2018 Jul 17; '''9''' (1):2761
Matrin 3-dependent neurotoxicity is modified by nucleic acid binding and nucleocytoplasmic localization. Description: Malik, Ahmed M, et al. Matrin 3-dependent neurotoxicity is modified by nucleic acid binding and nucleocytoplasmic localization. ''Elife''. 2018 Jul 17; '''7''':
How nanoscale protein interactions determine the mesoscale dynamic organisation of bacterial outer membrane proteins. Description: Chavent, Matthieu, et al. How nanoscale protein interactions determine the mesoscale dynamic organisation of bacterial outer membrane proteins. ''Nat Commun''. 2018 Jul 20; '''9''' (1):2846
Defining the impact of melanopsin missense polymorphisms using in vivo functional rescue. Description: Rodgers, Jessica, et al. Defining the impact of melanopsin missense polymorphisms using in vivo functional rescue. ''Hum Mol Genet''. 2018 Aug 1; '''27''' (15):2589-2603
Regional brain development analysis through registration using anisotropic similarity, a constrained affine transformation. Description: Legouhy, Antoine, et al. Regional brain development analysis through registration using anisotropic similarity, a constrained affine transformation. ''PLoS One''. 2020; '''15''' (2):e0214174
Multiparametric Analysis of Cerebral Development in Preterm Infants Using Magnetic Resonance Imaging. Description: Dubois, Marine, et al. Multiparametric Analysis of Cerebral Development in Preterm Infants Using Magnetic Resonance Imaging. ''Front Neurosci''. 2021; '''15''': 658002
Multiple sclerosis lesions segmentation from multiple experts: The MICCAI 2016 challenge dataset. Description: Commowick, Olivier, et al. Multiple sclerosis lesions segmentation from multiple experts: The MICCAI 2016 challenge dataset. ''Neuroimage''. 2021 Dec 1; '''244''': 118589