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| PRIDE: The proteomics identifications database |
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| Author(s): Martens L, Hermjakob H, Jones P, Adamski M, Taylor C, States D, Gevaert K, Vandekerckhove J, Apweiler R |
| Source: PROTEOMICS Volume: 5 Issue: 13 Pages: 3537-3545 Published: AUG 2005 |
| Times Cited: 101 References: 16 |
| Abstract: The advent of high-throughput proteomics has enabled the identification of ever increasing numbers of proteins. Correspondingly, the number of publications centered on these protein identifications has increased dramatically. With the first results of the HUPO Plasma Proteome Project being analyzed and many other large-scale proteomics projects about to disseminate their data, this trend is not likely to flatten out any time soon. However, the publication mechanism of these identified proteins has lagged behind in technical terms. Often very long lists of identifications are either published directly with the article, resulting in both a voluminous and rather tedious read, or are included on the publisher's website as supplementary information. In either case, these lists are typically only provided as portable document format documents with a custom-made layout, making it practically impossible for computer programs to interpret them, let alone efficiently query them. Here we propose the proteomics identifications (PRIDE) database (http://www.ebi.ac.uk/pride) as a means to finally turn publicly available data into publicly accessible data. PRIDE offers a web-based query interface, a user-friendly data upload facility, and a documented application programming interface for direct computational access. The complete PRIDE database, source code, data, and support tools are freely available for web access or download and local installation. |
| Document Type: Article |
| Language: English |
| Reprint Address: Martens, L (reprint author), State Univ Ghent, Dept Biochem, Fac Med & Hlth Sci, A Baertsoenkaai 3, B-9000 Ghent, Belgium |
Addresses:
1. State Univ Ghent, Dept Biochem, Fac Med & Hlth Sci, B-9000 Ghent, Belgium
2. European Bioinformat Inst, EMBL Outstn, Cambridge, England
3. Univ Michigan, Dept Human Genet, Ann Arbor, MI 48109 USA |
| Publisher: WILEY-V C H VERLAG GMBH, PO BOX 10 11 61, D-69451 WEINHEIM, GERMANY |
| Subject Category: Biochemical Research Methods; Biochemistry & Molecular Biology |
| IDS Number: 958VZ |
| ISSN: 1615-9853 |
| DOI: 10.1002/pmic.200401303 |
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