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Development of human protein reference database as an initial platform for approaching systems biology in humans

Peri, Suraj; Navarro, J Daniel; Amanchy, Ramars; Kristiansen, Troels Z; Jonnalagadda, Chandra Kiran; Surendranath, Vineeth; Niranjan, Vidya; Muthusamy, Babylakshmi; Gandhi, T K B and Gronborg, Mads, et al. (2003) In Genome Research 13(10). p.71-2363
Abstract

Human Protein Reference Database (HPRD) is an object database that integrates a wealth of information relevant to the function of human proteins in health and disease. Data pertaining to thousands of protein-protein interactions, posttranslational modifications, enzyme/substrate relationships, disease associations, tissue expression, and subcellular localization were extracted from the literature for a nonredundant set of 2750 human proteins. Almost all the information was obtained manually by biologists who read and interpreted >300,000 published articles during the annotation process. This database, which has an intuitive query interface allowing easy access to all the features of proteins, was built by using open source... (More)

Human Protein Reference Database (HPRD) is an object database that integrates a wealth of information relevant to the function of human proteins in health and disease. Data pertaining to thousands of protein-protein interactions, posttranslational modifications, enzyme/substrate relationships, disease associations, tissue expression, and subcellular localization were extracted from the literature for a nonredundant set of 2750 human proteins. Almost all the information was obtained manually by biologists who read and interpreted >300,000 published articles during the annotation process. This database, which has an intuitive query interface allowing easy access to all the features of proteins, was built by using open source technologies and will be freely available at http://www.hprd.org to the academic community. This unified bioinformatics platform will be useful in cataloging and mining the large number of proteomic interactions and alterations that will be discovered in the postgenomic era.

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type
Contribution to journal
publication status
published
keywords
BRCA1 Protein, Computational Biology, Databases, Protein, Genetics, Medical, Humans, Macromolecular Substances, Protein Interaction Mapping, Protein Processing, Post-Translational, Protein Structure, Quaternary, Protein Structure, Tertiary, Substrate Specificity, Journal Article
in
Genome Research
volume
13
issue
10
pages
9 pages
publisher
Cold Spring Harbor Laboratory Press
external identifiers
  • scopus:10744224197
ISSN
1088-9051
DOI
10.1101/gr.1680803
language
English
LU publication?
no
id
557ed1e6-8d36-4d37-a69d-96bb4cb4dbec
date added to LUP
2017-06-15 22:12:46
date last changed
2017-11-12 04:32:47
@article{557ed1e6-8d36-4d37-a69d-96bb4cb4dbec,
  abstract     = {<p>Human Protein Reference Database (HPRD) is an object database that integrates a wealth of information relevant to the function of human proteins in health and disease. Data pertaining to thousands of protein-protein interactions, posttranslational modifications, enzyme/substrate relationships, disease associations, tissue expression, and subcellular localization were extracted from the literature for a nonredundant set of 2750 human proteins. Almost all the information was obtained manually by biologists who read and interpreted &gt;300,000 published articles during the annotation process. This database, which has an intuitive query interface allowing easy access to all the features of proteins, was built by using open source technologies and will be freely available at http://www.hprd.org to the academic community. This unified bioinformatics platform will be useful in cataloging and mining the large number of proteomic interactions and alterations that will be discovered in the postgenomic era.</p>},
  author       = {Peri, Suraj and Navarro, J Daniel and Amanchy, Ramars and Kristiansen, Troels Z and Jonnalagadda, Chandra Kiran and Surendranath, Vineeth and Niranjan, Vidya and Muthusamy, Babylakshmi and Gandhi, T K B and Gronborg, Mads and Ibarrola, Nieves and Deshpande, Nandan and Shanker, K and Shivashankar, H N and Rashmi, B.P.  and Ramya, M A and Zhao, Zhixing and Chandrika, K N and Padma, N and Harsha, H C and Yatish, A J and Kavitha, M P and Menezes, Minal and Choudhury, Dipanwita Roy and Suresh, Shubha and Ghosh, Neelanjana and Saravana, R and Chandran, Sreenath and Krishna, Subhalakshmi and Joy, Mary and Anand, Sanjeev K and Madavan, V and Joseph, Ansamma and Wong, Guang W and Schiemann, William P and Constantinescu, Stefan N. and Huang, Lily and Khosravi-Far, Roya and Steen, Hanno and Tewari, Muneesh and Ghaffari, Saghi and Blobe, Gerard C and Dang, Chi V and Garcia, Joe G N and Pevsner, Jonathan and Jensen, Ole N and Roepstorff, Peter and Deshpande, Krishna S and Chinnaiyan, Arul M. and Hamosh, Ada and Chakravarti, Aravinda and Pandey, Akhilesh},
  issn         = {1088-9051},
  keyword      = {BRCA1 Protein,Computational Biology,Databases, Protein,Genetics, Medical,Humans,Macromolecular Substances,Protein Interaction Mapping,Protein Processing, Post-Translational,Protein Structure, Quaternary,Protein Structure, Tertiary,Substrate Specificity,Journal Article},
  language     = {eng},
  number       = {10},
  pages        = {71--2363},
  publisher    = {Cold Spring Harbor Laboratory Press},
  series       = {Genome Research},
  title        = {Development of human protein reference database as an initial platform for approaching systems biology in humans},
  url          = {http://dx.doi.org/10.1101/gr.1680803},
  volume       = {13},
  year         = {2003},
}