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Page 1
Analysis of the tryptic search space in UniProt databases.
Alpi E, Griss J, da Silva AW, Bely B, Antunes R, Zellner H, Ríos D, O'Donovan C, Vizcaíno JA, Martin MJ. Alpi E, et al. Among authors: rios d. Proteomics. 2015 Jan;15(1):48-57. doi: 10.1002/pmic.201400227. Epub 2014 Dec 3. Proteomics. 2015. PMID: 25307260 Free PMC article.
From Peptidome to PRIDE: public proteomics data migration at a large scale.
Csordas A, Wang R, Ríos D, Reisinger F, Foster JM, Slotta DJ, Vizcaíno JA, Hermjakob H. Csordas A, et al. Among authors: rios d. Proteomics. 2013 May;13(10-11):1692-5. doi: 10.1002/pmic.201200514. Epub 2013 Apr 20. Proteomics. 2013. PMID: 23533138 Free PMC article.
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: rios d. 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.
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. Among authors: rios d. Database (Oxford). 2012 Mar 20;2012:bas004. doi: 10.1093/database/bas004. Print 2012. Database (Oxford). 2012. PMID: 22434838 Free PMC article.
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: rios d. 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 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: rios d. 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.
Ensembl 2009.
Hubbard TJ, Aken BL, Ayling S, Ballester B, Beal K, Bragin E, Brent S, Chen Y, Clapham P, Clarke L, Coates G, Fairley S, Fitzgerald S, Fernandez-Banet J, Gordon L, Graf S, Haider S, Hammond M, Holland R, Howe K, Jenkinson A, Johnson N, Kahari A, Keefe D, Keenan S, Kinsella R, Kokocinski F, Kulesha E, Lawson D, Longden I, Megy K, Meidl P, Overduin B, Parker A, Pritchard B, Rios D, Schuster M, Slater G, Smedley D, Spooner W, Spudich G, Trevanion S, Vilella A, Vogel J, White S, Wilder S, Zadissa A, Birney E, Cunningham F, Curwen V, Durbin R, Fernandez-Suarez XM, Herrero J, Kasprzyk A, Proctor G, Smith J, Searle S, Flicek P. Hubbard TJ, et al. Among authors: rios d. Nucleic Acids Res. 2009 Jan;37(Database issue):D690-7. doi: 10.1093/nar/gkn828. Epub 2008 Nov 25. Nucleic Acids Res. 2009. PMID: 19033362 Free PMC article.
Ensembl 2006.
Birney E, Andrews D, Caccamo M, Chen Y, Clarke L, Coates G, Cox T, Cunningham F, Curwen V, Cutts T, Down T, Durbin R, Fernandez-Suarez XM, Flicek P, Gräf S, Hammond M, Herrero J, Howe K, Iyer V, Jekosch K, Kähäri A, Kasprzyk A, Keefe D, Kokocinski F, Kulesha E, London D, Longden I, Melsopp C, Meidl P, Overduin B, Parker A, Proctor G, Prlic A, Rae M, Rios D, Redmond S, Schuster M, Sealy I, Searle S, Severin J, Slater G, Smedley D, Smith J, Stabenau A, Stalker J, Trevanion S, Ureta-Vidal A, Vogel J, White S, Woodwark C, Hubbard TJ. Birney E, et al. Among authors: rios d. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D556-61. doi: 10.1093/nar/gkj133. Nucleic Acids Res. 2006. PMID: 16381931 Free PMC article.
Ensembl's 10th year.
Flicek P, Aken BL, Ballester B, Beal K, Bragin E, Brent S, Chen Y, Clapham P, Coates G, Fairley S, Fitzgerald S, Fernandez-Banet J, Gordon L, Gräf S, Haider S, Hammond M, Howe K, Jenkinson A, Johnson N, Kähäri A, Keefe D, Keenan S, Kinsella R, Kokocinski F, Koscielny G, Kulesha E, Lawson D, Longden I, Massingham T, McLaren W, Megy K, Overduin B, Pritchard B, Rios D, Ruffier M, Schuster M, Slater G, Smedley D, Spudich G, Tang YA, Trevanion S, Vilella A, Vogel J, White S, Wilder SP, Zadissa A, Birney E, Cunningham F, Dunham I, Durbin R, Fernández-Suarez XM, Herrero J, Hubbard TJ, Parker A, Proctor G, Smith J, Searle SM. Flicek P, et al. Among authors: rios d. Nucleic Acids Res. 2010 Jan;38(Database issue):D557-62. doi: 10.1093/nar/gkp972. Epub 2009 Nov 11. Nucleic Acids Res. 2010. PMID: 19906699 Free PMC article.
510 results