Published in Gene on October 15, 2007
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Identification and function of proteolysis regulators in seminal fluid. Mol Reprod Dev (2012) 1.02
Invertebrate trypsins: a review. J Comp Physiol B (2008) 0.99
Transcriptional responses in honey bee larvae infected with chalkbrood fungus. BMC Genomics (2010) 0.91
Genome-wide survey of prokaryotic serine proteases: analysis of distribution and domain architectures of five serine protease families in prokaryotes. BMC Genomics (2008) 0.91
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Genome-Wide Gene Expression in relation to Age in Large Laboratory Cohorts of Drosophila melanogaster. Genet Res Int (2015) 0.82
Functional genomics of the horn fly, Haematobia irritans (Linnaeus, 1758). BMC Genomics (2011) 0.78
PeptideMine--a webserver for the design of peptides for protein-peptide binding studies derived from protein-protein interactomes. BMC Bioinformatics (2010) 0.77
Regulation of a serine protease homolog by the JNK pathway during thoracic development of Drosophila melanogaster. FEBS Open Bio (2015) 0.76
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Integrating information from existing databases for enhanced function annotation of genes, genomes and networks. Bioinformation (2007) 0.75
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Initial sequencing and comparative analysis of the mouse genome. Nature (2002) 96.15
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Human non-synonymous SNPs: server and survey. Nucleic Acids Res (2002) 50.45
Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature (2002) 45.19
A human gut microbial gene catalogue established by metagenomic sequencing. Nature (2010) 43.63
Comparative metagenomics of microbial communities. Science (2005) 25.88
InterPro: the integrative protein signature database. Nucleic Acids Res (2008) 25.07
Recent improvements to the SMART domain-based sequence annotation resource. Nucleic Acids Res (2002) 25.06
The InterPro Database, 2003 brings increased coverage and new features. Nucleic Acids Res (2003) 24.72
Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature (2004) 24.40
Enterotypes of the human gut microbiome. Nature (2011) 24.36
Comparative assessment of large-scale data sets of protein-protein interactions. Nature (2002) 24.25
Proteome survey reveals modularity of the yeast cell machinery. Nature (2006) 20.77
STRING 8--a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res (2008) 20.62
The genome sequence of the malaria mosquito Anopheles gambiae. Science (2002) 20.36
SMART 4.0: towards genomic data integration. Nucleic Acids Res (2004) 19.37
The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Nucleic Acids Res (2010) 18.73
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InterPro, progress and status in 2005. Nucleic Acids Res (2005) 17.53
SMART 5: domains in the context of genomes and networks. Nucleic Acids Res (2006) 17.13
The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data. Nat Biotechnol (2004) 16.08
Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation. Bioinformatics (2006) 14.96
Toward automatic reconstruction of a highly resolved tree of life. Science (2006) 14.96
InterPro in 2011: new developments in the family and domain prediction database. Nucleic Acids Res (2011) 13.45
New developments in the InterPro database. Nucleic Acids Res (2007) 12.49
Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science (2010) 12.39
STRING 7--recent developments in the integration and prediction of protein interactions. Nucleic Acids Res (2006) 12.16
Unlocking the secrets of the genome. Nature (2009) 11.80
Gene expression during the life cycle of Drosophila melanogaster. Science (2002) 11.36
Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy. Nucleic Acids Res (2011) 10.82
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SMART 6: recent updates and new developments. Nucleic Acids Res (2008) 9.80
STRING: a database of predicted functional associations between proteins. Nucleic Acids Res (2003) 9.45
Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster. Science (2002) 9.43
Drug target identification using side-effect similarity. Science (2008) 9.24
SMART 7: recent updates to the protein domain annotation resource. Nucleic Acids Res (2011) 9.15
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia. Genome Res (2012) 9.13
Bioinformatics in the post-sequence era. Nat Genet (2003) 8.83
mRNA degradation by miRNAs and GW182 requires both CCR4:NOT deadenylase and DCP1:DCP2 decapping complexes. Genes Dev (2006) 8.78
Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution. Genome Res (2005) 8.38
PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments. Nucleic Acids Res (2006) 8.36
Literature mining for the biologist: from information retrieval to biological discovery. Nat Rev Genet (2006) 8.23
Protein disorder prediction: implications for structural proteomics. Structure (2003) 7.93
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nat Biotechnol (2011) 7.53
Alternative splicing and genome complexity. Nat Genet (2001) 7.30
The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract. Proc Natl Acad Sci U S A (2002) 7.21
A new non-linear normalization method for reducing variability in DNA microarray experiments. Genome Biol (2002) 7.12
Systematic discovery of in vivo phosphorylation networks. Cell (2007) 6.94
Richness of human gut microbiome correlates with metabolic markers. Nature (2013) 6.93
ELM server: A new resource for investigating short functional sites in modular eukaryotic proteins. Nucleic Acids Res (2003) 6.86
A side effect resource to capture phenotypic effects of drugs. Mol Syst Biol (2010) 6.75
The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans. Nature (2008) 6.69
Evolution of gene expression in the Drosophila melanogaster subgroup. Nat Genet (2003) 6.60
The ecoresponsive genome of Daphnia pulex. Science (2011) 6.55
BAC TransgeneOmics: a high-throughput method for exploration of protein function in mammals. Nat Methods (2008) 6.51
The genome of the model beetle and pest Tribolium castaneum. Nature (2008) 6.50
Association of genes to genetically inherited diseases using data mining. Nat Genet (2002) 5.78
Functional and evolutionary insights from the genomes of three parasitoid Nasonia species. Science (2010) 5.56
Immunity-related genes and gene families in Anopheles gambiae. Science (2002) 5.47
A gene expression map for the euchromatic genome of Drosophila melanogaster. Science (2004) 5.38
Dynamic complex formation during the yeast cell cycle. Science (2005) 5.11
STITCH: interaction networks of chemicals and proteins. Nucleic Acids Res (2007) 4.88
Genomes in flux: the evolution of archaeal and proteobacterial gene content. Genome Res (2002) 4.85
eggNOG: automated construction and annotation of orthologous groups of genes. Nucleic Acids Res (2007) 4.84
A cis-regulatory map of the Drosophila genome. Nature (2011) 4.80
Transcriptome complexity in a genome-reduced bacterium. Science (2009) 4.64
Feature-based prediction of non-classical and leaderless protein secretion. Protein Eng Des Sel (2004) 4.54
Update on XplorMed: A web server for exploring scientific literature. Nucleic Acids Res (2003) 4.42
Genomic variation landscape of the human gut microbiome. Nature (2012) 4.38
Genome-wide experimental determination of barriers to horizontal gene transfer. Science (2007) 4.37
A genome-wide survey of human pseudogenes. Genome Res (2003) 4.34
Expression profiling in primates reveals a rapid evolution of human transcription factors. Nature (2006) 4.26
KEGG Atlas mapping for global analysis of metabolic pathways. Nucleic Acids Res (2008) 4.14
iPath: interactive exploration of biochemical pathways and networks. Trends Biochem Sci (2008) 4.03
Proteome organization in a genome-reduced bacterium. Science (2009) 3.97
Molecular eco-systems biology: towards an understanding of community function. Nat Rev Microbiol (2008) 3.95
eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges. Nucleic Acids Res (2011) 3.94
Target-specific requirements for enhancers of decapping in miRNA-mediated gene silencing. Genes Dev (2007) 3.92
SuperTarget and Matador: resources for exploring drug-target relationships. Nucleic Acids Res (2007) 3.82
Rapid growth of a hepatocellular carcinoma and the driving mutations revealed by cell-population genetic analysis of whole-genome data. Proc Natl Acad Sci U S A (2011) 3.80
eggNOG v4.0: nested orthology inference across 3686 organisms. Nucleic Acids Res (2013) 3.77
Linear motif atlas for phosphorylation-dependent signaling. Sci Signal (2008) 3.77
Medusa: a simple tool for interaction graph analysis. Bioinformatics (2005) 3.74
Prediction of effective genome size in metagenomic samples. Genome Biol (2007) 3.73
Nonsense-mediated mRNA decay in Drosophila: at the intersection of the yeast and mammalian pathways. EMBO J (2003) 3.68
Identification of genes involved in Drosophila melanogaster geotaxis, a complex behavioral trait. Nat Genet (2002) 3.53
Systematic identification of novel protein domain families associated with nuclear functions. Genome Res (2002) 3.50
SmashCommunity: a metagenomic annotation and analysis tool. Bioinformatics (2010) 3.48
Function prediction and protein networks. Curr Opin Cell Biol (2003) 3.46