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ProteomeXchange provides globally coordinated proteomics data submission and dissemination.
Vizcaíno JA, Deutsch EW, Wang R, Csordas A, Reisinger F, Ríos D, Dianes JA, Sun Z, Farrah T, Bandeira N, Binz PA, Xenarios I, Eisenacher M, Mayer G, Gatto L, Campos A, Chalkley RJ, Kraus HJ, Albar JP, Martinez-Bartolomé S, Apweiler R, Omenn GS, Martens L, Jones AR, Hermjakob H. Vizcaíno JA, et al. Among authors: csordas a. Nat Biotechnol. 2014 Mar;32(3):223-6. doi: 10.1038/nbt.2839. Nat Biotechnol. 2014. PMID: 24727771 Free PMC article. No abstract available.
PRIDE: quality control in a proteomics data repository.
Csordas A, Ovelleiro D, Wang R, Foster JM, Ríos D, Vizcaíno JA, Hermjakob H. Csordas A, et al. Database (Oxford). 2012 Mar 20;2012:bas004. doi: 10.1093/database/bas004. Print 2012. Database (Oxford). 2012. PMID: 22434838 Free PMC article.
The PRoteomics IDEntification (PRIDE) Converter 2 framework: an improved suite of tools to facilitate data submission to the PRIDE database and the ProteomeXchange consortium.
Côté RG, Griss J, Dianes JA, Wang R, Wright JC, van den Toorn HW, van Breukelen B, Heck AJ, Hulstaert N, Martens L, Reisinger F, Csordas A, Ovelleiro D, Perez-Rivevol Y, Barsnes H, Hermjakob H, Vizcaíno JA. Côté RG, et al. Among authors: csordas a. Mol Cell Proteomics. 2012 Dec;11(12):1682-9. doi: 10.1074/mcp.O112.021543. Epub 2012 Sep 4. Mol Cell Proteomics. 2012. PMID: 22949509 Free PMC article.
How to submit MS proteomics data to ProteomeXchange via the PRIDE database.
Ternent T, Csordas A, Qi D, Gómez-Baena G, Beynon RJ, Jones AR, Hermjakob H, Vizcaíno JA. Ternent T, et al. Among authors: csordas a. Proteomics. 2014 Oct;14(20):2233-41. doi: 10.1002/pmic.201400120. Epub 2014 Aug 21. Proteomics. 2014. PMID: 25047258 Free article.
PRIDE Inspector Toolsuite: Moving Toward a Universal Visualization Tool for Proteomics Data Standard Formats and Quality Assessment of ProteomeXchange Datasets.
Perez-Riverol Y, Xu QW, Wang R, Uszkoreit J, Griss J, Sanchez A, Reisinger F, Csordas A, Ternent T, Del-Toro N, Dianes JA, Eisenacher M, Hermjakob H, Vizcaíno JA. Perez-Riverol Y, et al. Among authors: csordas a. Mol Cell Proteomics. 2016 Jan;15(1):305-17. doi: 10.1074/mcp.O115.050229. Epub 2015 Nov 6. Mol Cell Proteomics. 2016. PMID: 26545397 Free PMC article.
The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition.
Deutsch EW, Csordas A, Sun Z, Jarnuczak A, Perez-Riverol Y, Ternent T, Campbell DS, Bernal-Llinares M, Okuda S, Kawano S, Moritz RL, Carver JJ, Wang M, Ishihama Y, Bandeira N, Hermjakob H, Vizcaíno JA. Deutsch EW, et al. Among authors: csordas a. Nucleic Acids Res. 2017 Jan 4;45(D1):D1100-D1106. doi: 10.1093/nar/gkw936. Epub 2016 Oct 18. Nucleic Acids Res. 2017. PMID: 27924013 Free PMC article.
PRIDE Inspector: a tool to visualize and validate MS proteomics data.
Wang R, Fabregat A, Ríos D, Ovelleiro D, Foster JM, Côté RG, Griss J, Csordas A, Perez-Riverol Y, Reisinger F, Hermjakob H, Martens L, Vizcaíno JA. Wang R, et al. Among authors: csordas a. Nat Biotechnol. 2012 Feb 8;30(2):135-7. doi: 10.1038/nbt.2112. Nat Biotechnol. 2012. PMID: 22318026 Free PMC article. No abstract available.
The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013.
Vizcaíno JA, Côté RG, Csordas A, Dianes JA, Fabregat A, Foster JM, Griss J, Alpi E, Birim M, Contell J, O'Kelly G, Schoenegger A, Ovelleiro D, Pérez-Riverol Y, Reisinger F, Ríos D, Wang R, Hermjakob H. Vizcaíno JA, et al. Among authors: csordas a. Nucleic Acids Res. 2013 Jan;41(Database issue):D1063-9. doi: 10.1093/nar/gks1262. Epub 2012 Nov 29. Nucleic Acids Res. 2013. PMID: 23203882 Free PMC article.
Exploring the potential of public proteomics data.
Vaudel M, Verheggen K, Csordas A, Raeder H, Berven FS, Martens L, Vizcaíno JA, Barsnes H. Vaudel M, et al. Among authors: csordas a. Proteomics. 2016 Jan;16(2):214-25. doi: 10.1002/pmic.201500295. Epub 2015 Dec 15. Proteomics. 2016. PMID: 26449181 Free PMC article. Review.
125 results