Document Detail


ApoptoProteomics, an integrated database for analysis of proteomics data obtained from apoptotic cells.
MedLine Citation:
PMID:  22067098     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Apoptosis is the most commonly described form of programmed cell death, and dysfunction is implicated in a large number of human diseases. Many quantitative proteome analyses of apoptosis have been performed to gain insight in proteins involved in the process. This resulted in large and complex data sets that are difficult to evaluate. Therefore, we developed the ApoptoProteomics database for storage, browsing, and analysis of the outcome of large scale proteome analyses of apoptosis derived from human, mouse, and rat. The proteomics data of 52 publications were integrated and unified with protein annotations from UniProt-KB, the caspase substrate database homepage (CASBAH), and gene ontology. Currently, more than 2300 records of more than 1500 unique proteins were included, covering a large proportion of the core signaling pathways of apoptosis. Analysis of the data set revealed a high level of agreement between the reported changes in directionality reported in proteomics studies and expected apoptosis-related function and may disclose proteins without a current recognized involvement in apoptosis based on gene ontology. Comparison between induction of apoptosis by the intrinsic and the extrinsic apoptotic signaling pathway revealed slight differences. Furthermore, proteomics has significantly contributed to the field of apoptosis in identifying hundreds of caspase substrates. The database is available at http://apoptoproteomics.uio.no.
Authors:
Magnus Ø Arntzen; Bernd Thiede
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't     Date:  2011-11-08
Journal Detail:
Title:  Molecular & cellular proteomics : MCP     Volume:  11     ISSN:  1535-9484     ISO Abbreviation:  Mol. Cell Proteomics     Publication Date:  2012 Feb 
Date Detail:
Created Date:  2012-02-07     Completed Date:  2012-06-01     Revised Date:  2013-06-27    
Medline Journal Info:
Nlm Unique ID:  101125647     Medline TA:  Mol Cell Proteomics     Country:  United States    
Other Details:
Languages:  eng     Pagination:  M111.010447     Citation Subset:  IM    
Affiliation:
Biotechnology Centre of Oslo, University of Oslo, 0317 Oslo, Norway.
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MeSH Terms
Descriptor/Qualifier:
Animals
Apoptosis / physiology*
Caspases / metabolism
Computational Biology*
Databases, Protein*
Humans
Internet
Mice
Molecular Sequence Annotation
Proteins / metabolism*
Proteome / analysis*
Proteomics
Rats
Signal Transduction
User-Computer Interface
Chemical
Reg. No./Substance:
0/Proteins; 0/Proteome; EC 3.4.22.-/Caspases
Comments/Corrections

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