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. 2006 Jan 1;34(Database issue):D411-4.
doi: 10.1093/nar/gkj141.

Human protein reference database--2006 update

Gopa R Mishra  1 , M Suresh, K Kumaran, N Kannabiran, Shubha Suresh, P Bala, K Shivakumar, N Anuradha, Raghunath Reddy, T Madhan Raghavan, Shalini Menon, G Hanumanthu, Malvika Gupta, Sapna Upendran, Shweta Gupta, M Mahesh, Bincy Jacob, Pinky Mathew, Pritam Chatterjee, K S Arun, Salil Sharma, K N Chandrika, Nandan Deshpande, Kshitish Palvankar, R Raghavnath, R Krishnakanth, Hiren Karathia, B Rekha, Rashmi Nayak, G Vishnupriya, H G Mohan Kumar, M Nagini, G S Sameer Kumar, Rojan Jose, P Deepthi, S Sujatha Mohan, T K B Gandhi, H C Harsha, Krishna S Deshpande, Malabika Sarker, T S Keshava Prasad, Akhilesh Pandey
Affiliations

Human protein reference database--2006 update

Gopa R Mishra et al. Nucleic Acids Res. .

Abstract

Human Protein Reference Database (HPRD) (http://www.hprd.org) was developed to serve as a comprehensive collection of protein features, post-translational modifications (PTMs) and protein-protein interactions. Since the original report, this database has increased to >20 000 proteins entries and has become the largest database for literature-derived protein-protein interactions (>30 000) and PTMs (>8000) for human proteins. We have also introduced several new features in HPRD including: (i) protein isoforms, (ii) enhanced search options, (iii) linking of pathway annotations and (iv) integration of a novel browser, GenProt Viewer (http://www.genprot.org), developed by us that allows integration of genomic and proteomic information. With the continued support and active participation by the biomedical community, we expect HPRD to become a unique source of curated information for the human proteome and spur biomedical discoveries based on integration of genomic, transcriptomic and proteomic data.

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Figures

Figure 1
Figure 1
Statistics pertaining to HPRD growth, experimental types for protein–protein interactions and a breakdown of PTMs. (a) Growth of HPRD over the last 3 years with respect to protein entries, protein–protein interactions and PTMs. (b) Distribution of protein–protein interactions in HPRD based on the type of the experimental method. (c) Distribution of various types of PTMs in HPRD. The percentage of the respective PTM is indicated only when it is greater than or equal to 2.
Figure 2
Figure 2
A screenshot of the molecule page of EGF receptor in HPRD is shown. The molecule page shows a graphical representation of the protein with its protein domains as polygons and sites of phosphorylation as vertical straight lines with red circles at the ends and disulfide bonds represented as gray lines. A link to the GenProt Viewer showing a number of SNPs and exons is shown in the left lower corner. Haploview that shows population haplotype patterns is shown on the lower right corner. The popup on the top right shows the EGF signaling pathway.
See this image and copyright information in PMC

References

    1. Peri S., Navarro J.D., Kristiansen T.Z., Amanchy R., Surendranath V., Muthusamy B., Gandhi T.K., Chandrika K.N., Deshpande N., Suresh S., et al. Human protein reference database as a discovery resource for proteomics. Nucleic Acids Res. 2004;32:D497–D501. - PMC - PubMed
    1. Peri S., Navarro J.D., Amanchy R., Kristiansen T.Z., Jonnalagadda C.K., Surendranath V., Niranjan V., Muthusamy B., Gandhi T.K., Gronborg M., et al. Development of human protein reference database as an initial platform for approaching systems biology in humans. Genome Res. 2003;13:2363–2371. - PMC - PubMed
    1. Navarro J.D., Talreja N., Peri S., Vrushabendra B.M., Rashmi B.P., Padma N., Surendranath V., Jonnalagadda C.K., Kousthub P.S., Deshpande N., et al. BioBuilder as a database development and functional annotation platform for proteins. BMC Bioinformatics. 2004;5:43. - PMC - PubMed
    1. Walhout A.J., Vidal M. Protein interaction maps for model organisms. Nature Rev. Mol. Cell Biol. 2001;2:55–62. - PubMed
    1. Beausoleil S.A., Jedrychowski M., Schwartz D., Elias J.E., Villen J., Li J., Cohn M.A., Cantley L.C., Gygi S.P. Large-scale characterization of HeLa cell nuclear phosphoproteins. Proc. Natl Acad. Sci. USA. 2004;101:12130–12135. - PMC - PubMed

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