The DOI matches its Crossref record; 2 of the 2 references it cites were found in a registry or an index.
A guide to the Proteomics Identifications Database proteomics data repository
Open accessAbstract
The Proteomics Identifications Database (PRIDE, www.ebi.ac.uk/pride) is one of the main repositories of MS derived proteomics data. Here, we point out the main functionalities of PRIDE both as a submission repository and as a source for proteomics data. We describe the main features for data retrieval and visualization available through the PRIDE web and BioMart interfaces. We also highlight the mechanism by which tailored queries in the BioMart can join PRIDE to other resources such as Reactome, Ensembl or UniProt to execute extremely powerful across‐domain queries. We then present the latest improvements in the PRIDE submission process, using the new easy‐to‐use, platform‐independent graphical user interface submission tool PRIDE Converter. Finally, we speak about future plans and the role of PRIDE in the ProteomExchange consortium.
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Reactome knowledgebase of human biological pathways and processes
Matthews, L., Gopinath, G., Gillespie, M., Caudy, M., Croft, D., de Bono, B., Garapati, P., Hemish, J., Hermjakob, H., Jassal, B., et al. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkn863 · Cited by 873
Self-citationNCBI Reference Sequences: current status, policy and new initiatives
Pruitt, K. D., Tatusova, T., Klimke, W., & Maglott, D. R. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkn721 · Cited by 736 · cited 1×
“…PRIDE to all known accession numbers (including older accession numbers that are no longer in use) for those proteins in the most important protein databases (including UniProt [30], IPI [31], Ensembl [32], and RefSeq [33], but also to some genomic databases such as WormBase [34] and FlyBase [35]).”
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Cited by
The Proteomics Identifications (PRIDE) database and associated tools: status in 2013
Vizcaíno, J. A., Côté, R. G., Csordas, A., Dianes, J. A., Fabregat, A., Foster, J. M., Griss, J., Alpi, E., Birim, M., Contell, J., et al. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks1262 · Cited by 1,918
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Histone serotonylation is a permissive modification that enhances TFIID binding to H3K4me3
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Farrah, T., Deutsch, E. W., Omenn, G. S., Campbell, D. S., Sun, Z., Bletz, J. A., Mallick, P., Katz, J. E., Malmström, J., Ossola, R., et al. (2011) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m110.006353 · Cited by 451
Proline: an efficient and user-friendly software suite for large-scale proteomics
Bouyssié, D., Hesse, A.-M., Mouton-Barbosa, E., Rompais, M., Macron, C., Carapito, C., Gonzalez de Peredo, A., Couté, Y., Dupierris, V., Burel, A., et al. (2020) · Bioinformatics · doi:10.1093/bioinformatics/btaa118 · Cited by 300
Metadata
- Authors
- Vizcaíno, J. A., Côté, R., Reisinger, F., M. Foster, J., Mueller, M., Rameseder, J., Hermjakob, H., & Martens, L.
- Venue
- PROTEOMICS
- Publisher
- Wiley
- Published
- 2009-09
- Volume
- 9
- Issue
- 18
- Pages
- 4276-4283
- ISSN
- 1615-9853 (ISSN-L)
- 1615-9861
- OpenAlex
- W2150818376
- Cited by
- 237
- References
- 2
- FWCI
- 20.02
- Type
- journal article
- Language
- en
- Open access
- bronze
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- Vizcaíno, J. A., Côté, R., Reisinger, F., M. Foster, J., Mueller, M., Rameseder, J., Hermjakob, H., & Martens, L. (2009). A guide to the Proteomics Identifications Database proteomics data repository. PROTEOMICS. https://doi.org/10.1002/pmic.200900402
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