Human Protein Reference Database: Difference between revisions

Revision as of 10:17, 5 February 2017

Revision as of 17:43, 17 February 2017

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The HPRD is a result of an international collaborative effort between the [http://www.ibioinformatics.org/ Institute of Bioinformatics] in Bangalore, India and the [http://pandeylab.igm.jhmi.edu/ Pandey lab] at [[Johns Hopkins University]] in Baltimore, USA. HPRD contains manually curated scientific information pertaining to the biology of most human proteins. Information regarding proteins involved in human diseases is annotated and linked to [http://www.ncbi.nlm.nih.gov/sites/entrez?db=omim Online Mendelian Inheritance in Man] (OMIM) database. The [http://www.ncbi.nlm.nih.gov/ National Center for Biotechnology Information] provides link to HPRD through its human protein databases (e.g. [http://www.ncbi.nlm.nih.gov/sites/entrez?db=gene Entrez Gene], [http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq protein]) pertaining to genes and proteins.

This resource depicts information on human protein functions including [[protein–protein interactions]], [[post-translational modifications]], enzyme-substrate relationships and disease associations. Protein annotation information that is catalogued was derived through manual curation using published literature by expert biologists and through bioinformatics analyses of the protein sequence. The protein–protein interaction and subcellular localization data from HPRD have been used to develop a human protein interaction network.<ref>{{cite journal | author = Gandhi T.K.B. | year = | title = Analysis of the human protein interactome and comparison with yeast, worm and fly interaction datasets | url = | journal = Nature Genetics | volume = 2006 38| issue = 3| pages = 285–293 | doi=10.1038/ng1747 | pmid=16501559 | date=March 2006|display-authors=etal}}</ref>

Highlights of HPRD as follows:

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* HPRD data is available for download in tab delimited and [[XML]] file formats.<ref>{{cite journal | author = Mishra G. | year = | title = Human protein reference database—2006 update | journal = Nucleic Acids Research | volume = 34| pages = 411–414 | doi=10.1093/nar/gkj141|display-authors=etal | pmid=16381900 | pmc=1347503}}</ref>

HPRD also integrates data from [[Human Proteinpedia]], a community portal for integrating human protein data. The data from HPRD can be freely accessed and used by academic users while commercial entities are required to obtain a license for use. Human Proteinpedia<ref>{{cite journal | author = Mathivanan S. | year = 2008| title = Human Proteinpedia enables sharing of human protein data | pmid = 18259167| journal = Nature Biotechnology | volume = 2008 | issue = 26| pages = 164–167 | doi=10.1038/nbt0208-164|display-authors=etal}}</ref> content is freely available for anyone to download and use.

==PhosphoMotif Finder==