Proteomics and Beyond: a report on the 3rd Annual Spring Workshop of the HUPO-PSI 21-23 April 2006, San Francisco, CA, USA.

The mzIdentML data standard for mass spectrometry-based proteomics results. Mol Cell Proteomics (2012) 2.82

The ProteoRed MIAPE web toolkit: a user-friendly framework to connect and share proteomics standards. Mol Cell Proteomics (2011) 0.83

The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res (2003) 52.80

The minimum information about a genome sequence (MIGS) specification. Nat Biotechnol (2008) 31.04

InterPro: the integrative protein signature database. Nucleic Acids Res (2008) 25.07

The InterPro Database, 2003 brings increased coverage and new features. Nucleic Acids Res (2003) 24.72

The Universal Protein Resource (UniProt). Nucleic Acids Res (2005) 23.66

The Universal Protein Resource (UniProt): an expanding universe of protein information. Nucleic Acids Res (2006) 22.70

The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology. Nucleic Acids Res (2004) 18.75

Toward an online repository of Standard Operating Procedures (SOPs) for (meta)genomic annotation. OMICS (2008) 18.69

InterPro, progress and status in 2005. Nucleic Acids Res (2005) 17.53

Design and implementation of microarray gene expression markup language (MAGE-ML). Genome Biol (2002) 16.75

The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data. Nat Biotechnol (2004) 16.08

Reactome knowledgebase of human biological pathways and processes. Nucleic Acids Res (2008) 15.69

Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads. Bioinformatics (2009) 15.08

IntAct: an open source molecular interaction database. Nucleic Acids Res (2004) 15.02

The International Protein Index: an integrated database for proteomics experiments. Proteomics (2004) 14.67

InterPro in 2011: new developments in the family and domain prediction database. Nucleic Acids Res (2011) 13.45

The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013. Nucleic Acids Res (2012) 13.14

Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project. Nat Biotechnol (2008) 12.96

The Gene Ontology Annotation (GOA) project: implementation of GO in SWISS-PROT, TrEMBL, and InterPro. Genome Res (2003) 12.81

New developments in the InterPro database. Nucleic Acids Res (2007) 12.49

Prepublication data sharing. Nature (2009) 12.24

UniProt archive. Bioinformatics (2004) 11.92

A common open representation of mass spectrometry data and its application to proteomics research. Nat Biotechnol (2004) 11.42

Reactome: a database of reactions, pathways and biological processes. Nucleic Acids Res (2010) 11.23

The minimum information about a proteomics experiment (MIAPE). Nat Biotechnol (2007) 10.24

The GOA database in 2009--an integrated Gene Ontology Annotation resource. Nucleic Acids Res (2008) 10.21

EMBL Nucleotide Sequence Database in 2006. Nucleic Acids Res (2006) 9.72

The Ontology Lookup Service, a lightweight cross-platform tool for controlled vocabulary queries. BMC Bioinformatics (2006) 8.68

The genome of the kinetoplastid parasite, Leishmania major. Science (2005) 8.64

The Reactome pathway knowledgebase. Nucleic Acids Res (2013) 8.56

The minimum information required for reporting a molecular interaction experiment (MIMIx). Nat Biotechnol (2007) 8.24

Broadening the horizon--level 2.5 of the HUPO-PSI format for molecular interactions. BMC Biol (2007) 8.03

Clinical presentation, etiology, and outcome of infective endocarditis in the 21st century: the International Collaboration on Endocarditis-Prospective Cohort Study. Arch Intern Med (2009) 7.82

The genome sequence of Trypanosoma cruzi, etiologic agent of Chagas disease. Science (2005) 7.61

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nat Biotechnol (2011) 7.53

PRIDE: the proteomics identifications database. Proteomics (2005) 7.52

The IntAct molecular interaction database in 2012. Nucleic Acids Res (2011) 7.49

Staphylococcus aureus endocarditis: a consequence of medical progress. JAMA (2005) 7.41

The MGED Ontology: a resource for semantics-based description of microarray experiments. Bioinformatics (2006) 7.37

The EMBL Nucleotide Sequence Database. Nucleic Acids Res (2005) 7.18

Integrative annotation of 21,037 human genes validated by full-length cDNA clones. PLoS Biol (2004) 7.17

Calling on a million minds for community annotation in WikiProteins. Genome Biol (2008) 7.11

The EMBL Nucleotide Sequence Database. Nucleic Acids Res (2004) 6.72

An evaluation of GO annotation retrieval for BioCreAtIvE and GOA. BMC Bioinformatics (2005) 6.58

Integrating biological data--the Distributed Annotation System. BMC Bioinformatics (2008) 6.56

The EBI SRS server-new features. Bioinformatics (2002) 6.38

The Earth Microbiome Project: Meeting report of the "1 EMP meeting on sample selection and acquisition" at Argonne National Laboratory October 6 2010. Stand Genomic Sci (2010) 6.30

A guide to the Proteomics Identifications Database proteomics data repository. Proteomics (2009) 5.63

ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level. Bioinformatics (2010) 5.60

Overview of the HUPO Plasma Proteome Project: results from the pilot phase with 35 collaborating laboratories and multiple analytical groups, generating a core dataset of 3020 proteins and a publicly-available database. Proteomics (2005) 5.42

Ribosomally synthesized and post-translationally modified peptide natural products: overview and recommendations for a universal nomenclature. Nat Prod Rep (2013) 5.38

The UniProt-GO Annotation database in 2011. Nucleic Acids Res (2011) 5.19

EMBL Nucleotide Sequence Database: developments in 2005. Nucleic Acids Res (2006) 5.13

PSICQUIC and PSISCORE: accessing and scoring molecular interactions. Nat Methods (2011) 5.01

High-quality protein knowledge resource: SWISS-PROT and TrEMBL. Brief Bioinform (2002) 4.95

UniProtJAPI: a remote API for accessing UniProt data. Bioinformatics (2008) 4.88

mzML--a community standard for mass spectrometry data. Mol Cell Proteomics (2010) 4.81

Dissecting the genomic complexity underlying medulloblastoma. Nature (2012) 4.77

The Ontology Lookup Service: more data and better tools for controlled vocabulary queries. Nucleic Acids Res (2008) 4.73

Toward interoperable bioscience data. Nat Genet (2012) 4.72

Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project. Stand Genomic Sci (2010) 4.70

IntEnz, the integrated relational enzyme database. Nucleic Acids Res (2004) 4.65

Defining seasonal marine microbial community dynamics. ISME J (2011) 4.61

The Proteomics Identifications database: 2010 update. Nucleic Acids Res (2009) 4.47

PRIDE: new developments and new datasets. Nucleic Acids Res (2007) 4.42

Habitat-Lite: a GSC case study based on free text terms for environmental metadata. OMICS (2008) 4.40

The MIntAct project--IntAct as a common curation platform for 11 molecular interaction databases. Nucleic Acids Res (2013) 4.39

The seasonal structure of microbial communities in the Western English Channel. Environ Microbiol (2009) 4.30

The Rice Annotation Project Database (RAP-DB): 2008 update. Nucleic Acids Res (2007) 4.23

Human Proteinpedia enables sharing of human protein data. Nat Biotechnol (2008) 4.21

PRIDE: a public repository of protein and peptide identifications for the proteomics community. Nucleic Acids Res (2006) 4.19

Integr8 and Genome Reviews: integrated views of complete genomes and proteomes. Nucleic Acids Res (2005) 4.15

The first RSBI (ISA-TAB) workshop: "can a simple format work for complex studies?". OMICS (2008) 4.15