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UniProt: the Universal Protein knowledgebase
TLDR
The Swiss-Prot, TrEMBL and PIR protein database activities have united to form the Universal Protein Knowledgebase (UniProt), which is to provide a comprehensive, fully classified, richly and accurately annotated protein sequence knowledgebase, with extensive cross-references and query interfaces. Expand
InterProScan - an integration platform for the signature-recognition methods in InterPro
TLDR
The Perl-based InterProScan implementation is available from the EBI ftp server (ftp://ftp.ebi.ac.uk/pub/software/unix/iprscan/) and the SRS-basedInterProScan is available upon request. Expand
InterProScan: protein domains identifier
TLDR
InterProScan is a tool that combines different protein signature recognition methods from the InterPro consortium member databases into one resource and can be analysed for protein as well as DNA sequences. Expand
The Universal Protein Resource (UniProt)
TLDR
During 2004, tens of thousands of Knowledgebase records got manually annotated or updated; the UniProt keyword list got augmented by additional keywords; the documentation of the keywords and are continuously overhauling and standardizing the annotation of post-translational modifications. Expand
The SWISS-PROT protein sequence data bank and its supplement TrEMBL
TLDR
This supplement consists of entries in SWiss-PROT-like format derived from the translation of all coding sequences in the EMBL nucleotide sequence database, except the CDS already included in SWISS- PROT. Expand
ProteomeXchange provides globally co-ordinated proteomics data submission and dissemination
TLDR
The PX submission tool simplifies the process of submitting data to PRIDE by automating the very labor-intensive and therefore time-heavy and expensive process of manually downloading and editing files. Expand
Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads
TLDR
Pindel, a pattern growth approach, is presented, to detect breakpoints of large deletions and medium-sized insertions from paired-end short reads and to demonstrate the efficiency of the computer program and accuracy of the results. Expand
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
TLDR
The SWISS-PROT protein knowledgebase connects amino acid sequences with the current knowledge in the Life Sciences by providing an interdisciplinary overview of relevant information by bringing together experimental results, computed features and sometimes even contradictory conclusions. Expand
The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
TLDR
The Human Proteomics Initiative (HPI), a major project to annotate all known human sequences according to the quality standards of SWISS-PROT, is described. Expand
InterPro: the integrative protein signature database
TLDR
The InterPro database integrates together predictive models or ‘signatures’ representing protein domains, families and functional sites from multiple, diverse source databases: Gene3D, PANTHER, Pfam, PIRSF, PRINTS, ProDom, PROSITE, SMART, SUPERFAMILY and TIGRFAMs. Expand
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