Expert Protein-Analysis System
Logo Expasy 2020
Expasy is an online bioinformatics resource operated by the SIB Swiss Institute of Bioinformatics . It is an extensible and integrative portal which provides access to over 160 databases and software tools and supports a range of life science and clinical research areas, from genomics , proteomics and structural biology , to evolution and phylogeny , systems biology and medical chemistry . The individual resources (databases, web-based and downloadable software tools) are hosted in a decentralized way by different groups of the SIB Swiss Institute of Bioinformatics and partner institutions.
Queries of Expasy allow:
parallel searches SIB databases through a single search
aggregated search results from the complete set of >160 resources accessible from the portal.[ 1]
Expasy provides up-to-date information from the most recent release of each resources.
The terms used in Expasy are based on the EDAM comprehensive ontology .[ 2]
Expasy was created in August 1993. Originally, it was called ExPASy (Ex pert P rotein A nalysis Sy stem) and acted as a proteomics server to analyze protein sequences and structures and two-dimensional gel electrophoresis (2-D Page electrophoresis).[ 3] Among others, ExPASy hosted the protein sequence knowledge base, UniProtKB/Swiss-Prot , and its computer annotated supplement, UniProtKB/TrEMBL.[ 4]
ExPASy was the first website of the life sciences and among the first 150 websites in the world. As of 5 April 2007[update] , ExPASy had been consulted 1 billion times since its installation on 1 August 1993.[ 5]
In June 2011, it became the SIB ExPASy Bioinformatics Resources Portal: a diverse catalogue of bioinformatics resources developed by SIB Groups.[ 6] The current version of Expasy was released in October 2020.[ 7] [ 8]
Notes and references [ edit ]
^ "SIB Resources" . sib.swiss . Retrieved 27 October 2020 .
^ Ison J, Kalas M, Jonassen I, Bolser D, Uludag M, McWilliam H, et al. (May 2013). "EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats" . Bioinformatics . 29 (10): 1325–32. doi :10.1093/bioinformatics/btt113 . PMC 3654706 . PMID 23479348 .
^ Gasteiger E, Gattiker A, Hoogland C, Ivanyi I, Appel RD, Bairoch A (July 2003). "ExPASy: The proteomics server for in-depth protein knowledge and analysis" . Nucleic Acids Research . 31 (13): 3784–8. doi :10.1093/nar/gkg563 . PMC 168970 . PMID 12824418 .
^ "UniProtKB/Swiss-Prot - SIB Swiss Institute of Bioinformatics | Expasy" . www.expasy.org . Retrieved 15 March 2024 .
^ ExPASy: SIB Bioinformatics Resource Portal
^ Artimo P, Jonnalagedda M, Arnold K, Baratin D, Csardi G, de Castro E, et al. (July 2012). "ExPASy: SIB bioinformatics resource portal" . Nucleic Acids Research . 40 (Web Server issue): W597-603. doi :10.1093/nar/gks400 . PMC 3394269 . PMID 22661580 .
^ Duvaud, Séverine; Gabella, Chiara; Lisacek, Frédérique; Stockinger, Heinz; Ioannidis, Vassilios; Durinx, Christine (13 April 2021). "Expasy, the Swiss Bioinformatics Resource Portal, as designed by its users" . Nucleic Acids Research . 49 (W1): W216–W227. doi :10.1093/nar/gkab225 . ISSN 0305-1048 . PMC 8265094 . PMID 33849055 .
^ "Discover the new Expasy.org, the Swiss Bioinformatics Resource Portal" . sib.swiss . Retrieved 26 October 2020 .
Databases
Sequence databases: GenBank , European Nucleotide Archive , DNA Data Bank of Japan and China National GeneBank
Secondary databases: UniProt , database of protein sequences grouping together Swiss-Prot , TrEMBL and Protein Information Resource
Other databases: BioNumbers , Protein Data Bank , Ensembl , InterPro , KEGG , and Gene Ontology
Specialised genomic databases: BOLD , Saccharomyces Genome Database , FlyBase , VectorBase , WormBase , Rat Genome Database , PHI-base , Arabidopsis Information Resource , GISAID and Zebrafish Information Network
Software Other Institutions Organizations Meetings File formats Related topics