Published in Nucleic Acids Res on July 01, 2003
The BioPAX community standard for pathway data sharing. Nat Biotechnol (2010) 9.19
CASTp: computed atlas of surface topography of proteins with structural and topographical mapping of functionally annotated residues. Nucleic Acids Res (2006) 9.19
ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins. Nucleic Acids Res (2006) 6.13
Applications of genome-scale metabolic reconstructions. Mol Syst Biol (2009) 5.54
AutoFACT: an automatic functional annotation and classification tool. BMC Bioinformatics (2005) 4.26
The Schistosoma japonicum genome reveals features of host-parasite interplay. Nature (2009) 4.19
ExPASy: SIB bioinformatics resource portal. Nucleic Acids Res (2012) 3.70
Small-angle scattering for structural biology--expanding the frontier while avoiding the pitfalls. Protein Sci (2010) 3.30
Arrhythmogenic right ventricular cardiomyopathy type 5 is a fully penetrant, lethal arrhythmic disorder caused by a missense mutation in the TMEM43 gene. Am J Hum Genet (2008) 2.84
The Sol Genomics Network (solgenomics.net): growing tomatoes using Perl. Nucleic Acids Res (2010) 2.74
NEWT, a new taxonomy portal. Nucleic Acids Res (2003) 2.49
ENDEAVOUR update: a web resource for gene prioritization in multiple species. Nucleic Acids Res (2008) 2.31
Genome-scale metabolic network analysis of the opportunistic pathogen Pseudomonas aeruginosa PAO1. J Bacteriol (2008) 2.25
3D complex: a structural classification of protein complexes. PLoS Comput Biol (2006) 2.21
The myosin-binding protein C motif binds to F-actin in a phosphorylation-sensitive manner. J Biol Chem (2009) 2.16
Refined solution structure of the 82-kDa enzyme malate synthase G from joint NMR and synchrotron SAXS restraints. J Biomol NMR (2007) 2.00
Inferring protein domain interactions from databases of interacting proteins. Genome Biol (2005) 1.97
Structure determination of a membrane protein with two trans-membrane helices in aligned phospholipid bicelles by solid-state NMR spectroscopy. J Am Chem Soc (2006) 1.92
TarO: a target optimisation system for structural biology. Nucleic Acids Res (2008) 1.89
Computational analysis and identification of an emergent human adenovirus pathogen implicated in a respiratory fatality. Virology (2010) 1.82
Prediction of aggregation rate and aggregation-prone segments in polypeptide sequences. Protein Sci (2005) 1.80
Allelic variation in a fatty-acyl reductase gene causes divergence in moth sex pheromones. Nature (2010) 1.79
The genome-scale metabolic model iIN800 of Saccharomyces cerevisiae and its validation: a scaffold to query lipid metabolism. BMC Syst Biol (2008) 1.73
Evolution of mammalian chitinase(-like) members of family 18 glycosyl hydrolases. Genetics (2007) 1.73
Genome Projector: zoomable genome map with multiple views. BMC Bioinformatics (2009) 1.73
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YcfR (BhsA) influences Escherichia coli biofilm formation through stress response and surface hydrophobicity. J Bacteriol (2007) 1.67
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Bioinformatic analysis of the CLE signaling peptide family. BMC Plant Biol (2008) 1.66
Crystal structure of human XLF/Cernunnos reveals unexpected differences from XRCC4 with implications for NHEJ. EMBO J (2007) 1.66
Phylogenetic relationships within the Opisthokonta based on phylogenomic analyses of conserved single-copy protein domains. Mol Biol Evol (2011) 1.62
Steric mechanism of auto-inhibitory regulation of specific and non-specific DNA binding by the ETS transcriptional repressor ETV6. J Mol Biol (2013) 1.58
An ALS-associated mutation affecting TDP-43 enhances protein aggregation, fibril formation and neurotoxicity. Nat Struct Mol Biol (2011) 1.58
EzCatDB: the Enzyme Catalytic-mechanism Database. Nucleic Acids Res (2005) 1.58
Analysis of YfgL and YaeT interactions through bioinformatics, mutagenesis, and biochemistry. J Bacteriol (2007) 1.55
The genome sequence of Mannheimia haemolytica A1: insights into virulence, natural competence, and Pasteurellaceae phylogeny. J Bacteriol (2006) 1.55
Anaphase-promoting complex/cyclosome-Cdh1 coordinates glycolysis and glutaminolysis with transition to S phase in human T lymphocytes. Proc Natl Acad Sci U S A (2010) 1.50
Novel Anti-Nicotine Vaccine Using a Trimeric Coiled-Coil Hapten Carrier. PLoS One (2014) 1.50
Structure of a novel photoreceptor, the BLUF domain of AppA from Rhodobacter sphaeroides. Biochemistry (2005) 1.45
The IQD gene family in soybean: structure, phylogeny, evolution and expression. PLoS One (2014) 1.45
First Demonstration of Antigen Induced Cytokine Expression by CD4-1+ Lymphocytes in a Poikilotherm: Studies in Zebrafish (Danio rerio). PLoS One (2015) 1.44
Complete genome sequence of Enterococcus faecium strain TX16 and comparative genomic analysis of Enterococcus faecium genomes. BMC Microbiol (2012) 1.43
Cleavage of MCM2 licensing protein fosters senescence in human keratinocytes. Cell Cycle (2008) 1.42
Structural determinants of tissue tropism and in vivo pathogenicity for the parvovirus minute virus of mice. J Virol (2005) 1.41
Correcting ligands, metabolites, and pathways. BMC Bioinformatics (2006) 1.41
PIM-1-specific mAb suppresses human and mouse tumor growth by decreasing PIM-1 levels, reducing Akt phosphorylation, and activating apoptosis. J Clin Invest (2009) 1.41
Ubiquitin fold modifier 1 (UFM1) and its target UFBP1 protect pancreatic beta cells from ER stress-induced apoptosis. PLoS One (2011) 1.38
Global discovery of small RNAs in Yersinia pseudotuberculosis identifies Yersinia-specific small, noncoding RNAs required for virulence. Proc Natl Acad Sci U S A (2011) 1.38
Structure and functional analysis of LptC, a conserved membrane protein involved in the lipopolysaccharide export pathway in Escherichia coli. J Biol Chem (2010) 1.35
Galphaq directly activates p63RhoGEF and Trio via a conserved extension of the Dbl homology-associated pleckstrin homology domain. J Biol Chem (2007) 1.35
FGDB: revisiting the genome annotation of the plant pathogen Fusarium graminearum. Nucleic Acids Res (2010) 1.35
Crystal structure of Bacillus anthracis dihydrofolate reductase with the dihydrophthalazine-based trimethoprim derivative RAB1 provides a structural explanation of potency and selectivity. Antimicrob Agents Chemother (2009) 1.34
The LptA protein of Escherichia coli is a periplasmic lipid A-binding protein involved in the lipopolysaccharide export pathway. J Biol Chem (2008) 1.34
Caldicellulosiruptor core and pangenomes reveal determinants for noncellulosomal thermophilic deconstruction of plant biomass. J Bacteriol (2012) 1.32
High-throughput expression of C. elegans proteins. Genome Res (2004) 1.32
Functional and biological determinants affecting the duration of action and efficacy of anti-(+)-methamphetamine monoclonal antibodies in rats. Vaccine (2009) 1.31
Effect of 30 per cent maternal nutrient restriction from 0.16 to 0.5 gestation on fetal baboon kidney gene expression. J Physiol (2006) 1.29
Cue1p is an activator of Ubc7p E2 activity in vitro and in vivo. J Biol Chem (2008) 1.29
Gene expression regulation by the Curli activator CsgD protein: modulation of cellulose biosynthesis and control of negative determinants for microbial adhesion. J Bacteriol (2006) 1.29
Crystal structure of a p53 core tetramer bound to DNA. Oncogene (2008) 1.28
Identification of novel protein kinase A phosphorylation sites in the M-domain of human and murine cardiac myosin binding protein-C using mass spectrometry analysis. J Proteome Res (2010) 1.28
Identification of CD46 binding sites within the adenovirus serotype 35 fiber knob. J Virol (2007) 1.27
Evolutionary conserved role for TARPs in the gating of glutamate receptors and tuning of synaptic function. Neuron (2008) 1.27
Comprehensive proteome analysis of an Apc mouse model uncovers proteins associated with intestinal tumorigenesis. Cancer Prev Res (Phila) (2009) 1.27
Acetaldehyde dissociates the PTP1B-E-cadherin-beta-catenin complex in Caco-2 cell monolayers by a phosphorylation-dependent mechanism. Biochem J (2007) 1.26
Genomic resources for Myzus persicae: EST sequencing, SNP identification, and microarray design. BMC Genomics (2007) 1.26
ProMoST (Protein Modification Screening Tool): a web-based tool for mapping protein modifications on two-dimensional gels. Nucleic Acids Res (2004) 1.26
AdoMet radical proteins--from structure to evolution--alignment of divergent protein sequences reveals strong secondary structure element conservation. Nucleic Acids Res (2004) 1.24
Evolution of multicomponent pheromone signals in small ermine moths involves a single fatty-acyl reductase gene. Proc Natl Acad Sci U S A (2010) 1.22
Functional gene analysis suggests different acetogen populations in the bovine rumen and tammar wallaby forestomach. Appl Environ Microbiol (2010) 1.22
Protein coding content of the UL)b' region of wild-type rhesus cytomegalovirus. Virology (2008) 1.21
Proteomic identification of multitasking proteins in unexpected locations complicates drug targeting. Nat Rev Drug Discov (2009) 1.21
Divergence and mosaicism among virulent soil phages of the Burkholderia cepacia complex. J Bacteriol (2006) 1.20
Preferential attachment in the evolution of metabolic networks. BMC Genomics (2005) 1.20
Using the reconstructed genome-scale human metabolic network to study physiology and pathology. J Intern Med (2012) 1.20
Getting started in gene orthology and functional analysis. PLoS Comput Biol (2010) 1.20
Interplay between Clostridium thermocellum family 48 and family 9 cellulases in cellulosomal versus noncellulosomal states. Appl Environ Microbiol (2010) 1.19
An examination of the relationship between active site loop size and thermodynamic activation parameters for orotidine 5'-monophosphate decarboxylase from mesophilic and thermophilic organisms. Biochemistry (2009) 1.18
Role of Lys-12 in catalysis by triosephosphate isomerase: a two-part substrate approach. Biochemistry (2010) 1.18
Investigation of the biophysical and cell biological properties of ferroportin, a multipass integral membrane protein iron exporter. J Mol Biol (2009) 1.18
Bacterial growth at -15 °C; molecular insights from the permafrost bacterium Planococcus halocryophilus Or1. ISME J (2013) 1.18
Chlamydial CT441 is a PDZ domain-containing tail-specific protease that interferes with the NF-kappaB pathway of immune response. J Bacteriol (2007) 1.17
Oxidative protein folding in vitro: a study of the cooperation between quiescin-sulfhydryl oxidase and protein disulfide isomerase. Biochemistry (2008) 1.17
The Q cycle of cytochrome bc complexes: a structure perspective. Biochim Biophys Acta (2011) 1.16
A structure filter for the Eukaryotic Linear Motif Resource. BMC Bioinformatics (2009) 1.16
A hyperthermophilic laccase from Thermus thermophilus HB27. Extremophiles (2005) 1.16
Medicago truncatula syntaxin SYP132 defines the symbiosome membrane and infection droplet membrane in root nodules. Planta (2006) 1.15
Molecular basis for the differential use of glucose and glutamine in cell proliferation as revealed by synchronized HeLa cells. Proc Natl Acad Sci U S A (2011) 1.15
Characterization of the infectious salmon anemia virus fusion protein. J Virol (2005) 1.15
Conceptual framework and pilot study to benchmark phylogenomic databases based on reference gene trees. Brief Bioinform (2011) 1.15
Gene expression profiling to identify eggshell proteins involved in physical defense of the chicken egg. BMC Genomics (2010) 1.15
The NMDA receptor NR1 C1 region bound to calmodulin: structural insights into functional differences between homologous domains. Structure (2007) 1.13
Structure and expression of the maize (Zea mays L.) SUN-domain protein gene family: evidence for the existence of two divergent classes of SUN proteins in plants. BMC Plant Biol (2010) 1.13
SmgGDS is a guanine nucleotide exchange factor that specifically activates RhoA and RhoC. J Biol Chem (2011) 1.13
Identification of novel peptide substrates for protein farnesyltransferase reveals two substrate classes with distinct sequence selectivities. J Mol Biol (2009) 1.13
Streptococcus pneumoniae endohexosaminidase D, structural and mechanistic insight into substrate-assisted catalysis in family 85 glycoside hydrolases. J Biol Chem (2009) 1.12
Functional studies of multiple thioredoxins from Mycobacterium tuberculosis. J Bacteriol (2008) 1.12
Augmenter of liver regeneration: substrate specificity of a flavin-dependent oxidoreductase from the mitochondrial intermembrane space. Biochemistry (2009) 1.12
P. aeruginosa PilT structures with and without nucleotide reveal a dynamic type IV pilus retraction motor. J Mol Biol (2010) 1.12
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SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling. Electrophoresis (1997) 57.27
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res (2003) 52.80
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The InterPro Database, 2003 brings increased coverage and new features. Nucleic Acids Res (2003) 24.72
The Universal Protein Resource (UniProt): an expanding universe of protein information. Nucleic Acids Res (2006) 22.70
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Calling on a million minds for community annotation in WikiProteins. Genome Biol (2008) 7.11
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ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins. Nucleic Acids Res (2006) 6.13
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IntEnz, the integrated relational enzyme database. Nucleic Acids Res (2004) 4.65
A large-scale evaluation of computational protein function prediction. Nat Methods (2013) 4.61
Integr8 and Genome Reviews: integrated views of complete genomes and proteomes. Nucleic Acids Res (2005) 4.15
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The Chromosome-Centric Human Proteome Project for cataloging proteins encoded in the genome. Nat Biotechnol (2012) 2.14
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The Swiss-Prot variant page and the ModSNP database: a resource for sequence and structure information on human protein variants. Hum Mutat (2004) 1.97
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neXtProt: organizing protein knowledge in the context of human proteome projects. J Proteome Res (2012) 1.80
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Annotation of post-translational modifications in the Swiss-Prot knowledge base. Proteomics (2004) 1.76
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Characterization of protein cross-links via mass spectrometry and an open-modification search strategy. Anal Chem (2008) 1.56
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Further steps towards data standardisation: the Proteomic Standards Initiative HUPO 3(rd) annual congress, Beijing 25-27(th) October, 2004. Proteomics (2005) 1.54
Protein variety and functional diversity: Swiss-Prot annotation in its biological context. C R Biol (2005) 1.54
The Make 2D-DB II package: conversion of federated two-dimensional gel electrophoresis databases into a relational format and interconnection of distributed databases. Proteomics (2003) 1.51
Annotating single amino acid polymorphisms in the UniProt/Swiss-Prot knowledgebase. Hum Mutat (2008) 1.50
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The UniProtKB/Swiss-Prot knowledgebase and its Plant Proteome Annotation Program. J Proteomics (2008) 1.38
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GermOnline 4.0 is a genomics gateway for germline development, meiosis and the mitotic cell cycle. Database (Oxford) (2010) 1.31
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Towards BioDBcore: a community-defined information specification for biological databases. Database (Oxford) (2011) 1.24
OpenFluDB, a database for human and animal influenza virus. Database (Oxford) (2010) 1.20
SWISS-2DPAGE, ten years later. Proteomics (2004) 1.20
Standard guidelines for the chromosome-centric human proteome project. J Proteome Res (2012) 1.20
EasyProt--an easy-to-use graphical platform for proteomics data analysis. J Proteomics (2012) 1.20
Combining low- and high-energy tandem mass spectra for optimized peptide quantification with isobaric tags. J Proteomics (2009) 1.20
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Plant protein annotation in the UniProt Knowledgebase. Plant Physiol (2005) 1.15
InSilicoSpectro: an open-source proteomics library. J Proteome Res (2006) 1.12
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A chromosome-centric human proteome project (C-HPP) to characterize the sets of proteins encoded in chromosome 17. J Proteome Res (2012) 1.03
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Peptide mass fingerprinting peak intensity prediction: extracting knowledge from spectra. Proteomics (2002) 1.01
Industrial-scale proteomics: from liters of plasma to chemically synthesized proteins. Proteomics (2004) 0.96
The human proteome project: Current state and future direction. Mol Cell Proteomics (2011) 0.96
Human aldehyde dehydrogenase genes: alternatively spliced transcriptional variants and their suggested nomenclature. Pharmacogenet Genomics (2009) 0.95
The gel electrophoresis markup language (GelML) from the Proteomics Standards Initiative. Proteomics (2010) 0.91
Functional identification of APIP as human mtnB, a key enzyme in the methionine salvage pathway. PLoS One (2012) 0.91
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A suite of tools to analyse and publish 2-DE data. Proteomics (2008) 0.87
Global human tissue profiling and protein network analysis reveals distinct levels of transcriptional germline-specificity and identifies target genes for male infertility. Hum Reprod (2012) 0.86
A large-scale protein-function database. Nat Chem Biol (2010) 0.86
Guidelines for reporting the use of gel image informatics in proteomics. Nat Biotechnol (2010) 0.86
Quantitative analysis of human cerebrospinal fluid proteins using a combination of cysteine tagging and amine-reactive isobaric labeling. J Proteome Res (2010) 0.85
The World-2DPAGE Constellation to promote and publish gel-based proteomics data through the ExPASy server. J Proteomics (2008) 0.85
MIAPEGelDB, a web-based submission tool and public repository for MIAPE gel electrophoresis documents. J Proteomics (2008) 0.83
Proteomics and its trends facing nature's complexity. Proteomics (2002) 0.83
Visualization and analysis of molecular scanner peptide mass spectra. J Am Soc Mass Spectrom (2002) 0.82
Using bioinformatic resources in the proteomic analysis of biological fluids. Proteomics Clin Appl (2007) 0.79
Animal Toxins: How is Complexity Represented in Databases? Toxins (Basel) (2010) 0.79