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VEuPathDB: the eukaryotic pathogen, vector and host bioinformatics resource center.
Amos B, Aurrecoechea C, Barba M, Barreto A, Basenko EY, Bażant W, Belnap R, Blevins AS, Böhme U, Brestelli J, Brunk BP, Caddick M, Callan D, Campbell L, Christensen MB, Christophides GK, Crouch K, Davis K, DeBarry J, Doherty R, Duan Y, Dunn M, Falke D, Fisher S, Flicek P, Fox B, Gajria B, Giraldo-Calderón GI, Harb OS, Harper E, Hertz-Fowler C, Hickman MJ, Howington C, Hu S, Humphrey J, Iodice J, Jones A, Judkins J, Kelly SA, Kissinger JC, Kwon DK, Lamoureux K, Lawson D, Li W, Lies K, Lodha D, Long J, MacCallum RM, Maslen G, McDowell MA, Nabrzyski J, Roos DS, Rund SSC, Schulman SW, Shanmugasundram A, Sitnik V, Spruill D, Starns D, Stoeckert CJ, Tomko SS, Wang H, Warrenfeltz S, Wieck R, Wilkinson PA, Xu L, Zheng J. Amos B, et al. Among authors: jones a. Nucleic Acids Res. 2022 Jan 7;50(D1):D898-D911. doi: 10.1093/nar/gkab929. Nucleic Acids Res. 2022. PMID: 34718728 Free PMC article.
An object model and database for functional genomics.
Jones A, Hunt E, Wastling JM, Pizarro A, Stoeckert CJ Jr. Jones A, et al. Bioinformatics. 2004 Jul 10;20(10):1583-90. doi: 10.1093/bioinformatics/bth130. Epub 2004 May 14. Bioinformatics. 2004. PMID: 15145818
TriTrypDB: An integrated functional genomics resource for kinetoplastida.
Shanmugasundram A, Starns D, Böhme U, Amos B, Wilkinson PA, Harb OS, Warrenfeltz S, Kissinger JC, McDowell MA, Roos DS, Crouch K, Jones AR. Shanmugasundram A, et al. Among authors: jones ar. PLoS Negl Trop Dis. 2023 Jan 19;17(1):e0011058. doi: 10.1371/journal.pntd.0011058. eCollection 2023 Jan. PLoS Negl Trop Dis. 2023. PMID: 36656904 Free PMC article.
VEuPathDB: the eukaryotic pathogen, vector and host bioinformatics resource center in 2023.
Alvarez-Jarreta J, Amos B, Aurrecoechea C, Bah S, Barba M, Barreto A, Basenko EY, Belnap R, Blevins A, Böhme U, Brestelli J, Brown S, Callan D, Campbell LI, Christophides GK, Crouch K, Davison HR, DeBarry JD, Demko R, Doherty R, Duan Y, Dundore W, Dyer S, Falke D, Fischer S, Gajria B, Galdi D, Giraldo-Calderón GI, Harb OS, Harper E, Helb D, Howington C, Hu S, Humphrey J, Iodice J, Jones A, Judkins J, Kelly SA, Kissinger JC, Kittur N, Kwon DK, Lamoureux K, Li W, Lodha D, MacCallum RM, Maslen G, McDowell MA, Myers J, Nural MV, Roos DS, Rund SSC, Shanmugasundram A, Sitnik V, Spruill D, Starns D, Tomko SS, Wang H, Warrenfeltz S, Wieck R, Wilkinson PA, Zheng J. Alvarez-Jarreta J, et al. Among authors: jones a. Nucleic Acids Res. 2024 Jan 5;52(D1):D808-D816. doi: 10.1093/nar/gkad1003. Nucleic Acids Res. 2024. PMID: 37953350 Free PMC article.
An introduction to proteome bioinformatics.
Jones AR, Hubbard SJ. Jones AR, et al. Methods Mol Biol. 2010;604:1-5. doi: 10.1007/978-1-60761-444-9_1. Methods Mol Biol. 2010. PMID: 20013360
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: jones ar. Proteomics. 2014 Oct;14(20):2233-41. doi: 10.1002/pmic.201400120. Epub 2014 Aug 21. Proteomics. 2014. PMID: 25047258 Free article.
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