I’m up to 17 articles, including 5 first author ones. How the heck did that happen??
1: Côté R, Reisinger F, Martens L, Barsnes H, Vizcaino JA, Hermjakob H. The Ontology Lookup Service: bigger and better. Nucleic Acids Res. 2010 May 11. PubMed PMID: 20460452.
2: Vizcaíno JA, Reisinger F, Côté R, Martens L. PRIDE: Data submission and analysis. Curr Protoc Protein Sci. 2010 Apr;Chapter 25:Unit 25.4. PubMed PMID: 20393974.
3: Côté RG, Reisinger F, Martens L. jmzML, an open-source Java API for mzML, the PSI standard for MS data. Proteomics. 2010 Apr;10(7):1332-5. PubMed PMID: 20127693.
4: Barsnes H, Côté RG, Eidhammer I, Martens L. OLS dialog: an open-source front end to the ontology lookup service. BMC Bioinformatics. 2010 Jan 17;11:34. PubMed PMID: 20078892; PubMed Central PMCID: PMC2823706.
5: Vizcaíno JA, Côté R, Reisinger F, Barsnes H, Foster JM, Rameseder J, Hermjakob H, Martens L. The Proteomics Identifications database: 2010 update. Nucleic Acids Res. 2010 Jan;38(Database issue):D736-42. Epub 2009 Nov 11. PubMed PMID: 19906717; PubMed Central PMCID: PMC2808904.
6: Vizcaíno JA, Côté R, Reisinger F, Foster JM, Mueller M, Rameseder J, Hermjakob H, Martens L. A guide to the Proteomics Identifications Database proteomics data repository. Proteomics. 2009 Sep;9(18):4276-83. PubMed PMID: 19662629.
7: Stockinger H, Attwood T, Chohan SN, Côté R, Cudré-Mauroux P, Falquet L, Fernandes P, Finn RD, Hupponen T, Korpelainen E, Labarga A, Laugraud A, Lima T, Pafilis E, Pagni M, Pettifer S, Phan I, Rahman N. Experience using web services for biological sequence analysis. Brief Bioinform. 2008 Nov;9(6):493-505. Epub 2008 Jul 11. PubMed PMID: 18621748.
8: Côté RG, Jones P, Martens L, Apweiler R, Hermjakob H. The Ontology Lookup Service: more data and better tools for controlled vocabulary queries. Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W372-6. Epub 2008 May 8. PubMed PMID: 18467421; PubMed Central PMCID: PMC2447739.
9: Siepen JA, Belhajjame K, Selley JN, Embury SM, Paton NW, Goble CA, Oliver SG, Stevens R, Zamboulis L, Martin N, Poulovassillis A, Jones P, Côté R, Hermjakob H, Pentony MM, Jones DT, Orengo CA, Hubbard SJ. ISPIDER Central: an integrated database web-server for proteomics. Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W485-90. Epub 2008 Apr 25. PubMed PMID: 18440977; PubMed Central PMCID: PMC2447780.
10: Martens L, Jones P, Côté R. Using the Proteomics Identifications Database (PRIDE). Curr Protoc Bioinformatics. 2008 Mar;Chapter 13:Unit 13.8. PubMed PMID: 18428683.
11: Mueller M, Vizcaíno JA, Jones P, Côté R, Thorneycroft D, Apweiler R, Hermjakob H, Martens L. Analysis of the experimental detection of central nervous system-related genes in human brain and cerebrospinal fluid datasets. Proteomics. 2008 Mar;8(6):1138-48. PubMed PMID: 18283668.
12: Klie S, Martens L, Vizcaíno JA, Côté R, Jones P, Apweiler R, Hinneburg A, Hermjakob H. Analyzing large-scale proteomics projects with latent semantic indexing. J Proteome Res. 2008 Jan;7(1):182-91. Epub 2007 Nov 30. PubMed PMID: 18047271.
13: Jones P, Côté R. The PRIDE proteomics identifications database: data submission, query, and dataset comparison. Methods Mol Biol. 2008;484:287-303. PubMed PMID: 18592187.
14: Jones P, Côté RG, Cho SY, Klie S, Martens L, Quinn AF, Thorneycroft D, Hermjakob H. PRIDE: new developments and new datasets. Nucleic Acids Res. 2008 Jan;36(Database issue):D878-83. Epub 2007 Nov 22. PubMed PMID: 18033805; PubMed Central PMCID: PMC2238846.
15: Côté RG, Jones P, Martens L, Kerrien S, Reisinger F, Lin Q, Leinonen R, Apweiler R, Hermjakob H. The Protein Identifier Cross-Referencing (PICR) service: reconciling protein identifiers across multiple source databases. BMC Bioinformatics. 2007 Oct 18;8:401. PubMed PMID: 17945017; PubMed Central PMCID: PMC2151082.
16: Côté RG, Jones P, Apweiler R, Hermjakob H. The Ontology Lookup Service, a lightweight cross-platform tool for controlled vocabulary queries. BMC Bioinformatics. 2006 Feb 28;7:97. PubMed PMID: 16507094; PubMed Central PMCID: PMC1420335.
17: Jones P, Côté RG, Martens L, Quinn AF, Taylor CF, Derache W, Hermjakob H, Apweiler R. PRIDE: a public repository of protein and peptide identifications for the proteomics community. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D659-63. PubMed PMID: 16381953; PubMed Central PMCID: PMC1347500.