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The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics.
Deutsch EW, Bandeira N, Sharma V, Perez-Riverol Y, Carver JJ, Kundu DJ, García-Seisdedos D, Jarnuczak AF, Hewapathirana S, Pullman BS, Wertz J, Sun Z, Kawano S, Okuda S, Watanabe Y, Hermjakob H, MacLean B, MacCoss MJ, Zhu Y, Ishihama Y, Vizcaíno JA. Deutsch EW, et al. Among authors: zhu y. Nucleic Acids Res. 2020 Jan 8;48(D1):D1145-D1152. doi: 10.1093/nar/gkz984. Nucleic Acids Res. 2020. PMID: 31686107 Free PMC article.
iProX: an integrated proteome resource.
Ma J, Chen T, Wu S, Yang C, Bai M, Shu K, Li K, Zhang G, Jin Z, He F, Hermjakob H, Zhu Y. Ma J, et al. Among authors: zhu y. Nucleic Acids Res. 2019 Jan 8;47(D1):D1211-D1217. doi: 10.1093/nar/gky869. Nucleic Acids Res. 2019. PMID: 30252093 Free PMC article.
Universal Spectrum Identifier for mass spectra.
Deutsch EW, Perez-Riverol Y, Carver J, Kawano S, Mendoza L, Van Den Bossche T, Gabriels R, Binz PA, Pullman B, Sun Z, Shofstahl J, Bittremieux W, Mak TD, Klein J, Zhu Y, Lam H, Vizcaíno JA, Bandeira N. Deutsch EW, et al. Among authors: zhu y. Nat Methods. 2021 Jul;18(7):768-770. doi: 10.1038/s41592-021-01184-6. Epub 2021 Jun 28. Nat Methods. 2021. PMID: 34183830 Free PMC article.
iProX in 2021: connecting proteomics data sharing with big data.
Chen T, Ma J, Liu Y, Chen Z, Xiao N, Lu Y, Fu Y, Yang C, Li M, Wu S, Wang X, Li D, He F, Hermjakob H, Zhu Y. Chen T, et al. Among authors: zhu y. Nucleic Acids Res. 2022 Jan 7;50(D1):D1522-D1527. doi: 10.1093/nar/gkab1081. Nucleic Acids Res. 2022. PMID: 34871441 Free PMC article.
The ProteomeXchange consortium at 10 years: 2023 update.
Deutsch EW, Bandeira N, Perez-Riverol Y, Sharma V, Carver JJ, Mendoza L, Kundu DJ, Wang S, Bandla C, Kamatchinathan S, Hewapathirana S, Pullman BS, Wertz J, Sun Z, Kawano S, Okuda S, Watanabe Y, MacLean B, MacCoss MJ, Zhu Y, Ishihama Y, Vizcaíno JA. Deutsch EW, et al. Among authors: zhu y. Nucleic Acids Res. 2023 Jan 6;51(D1):D1539-D1548. doi: 10.1093/nar/gkac1040. Nucleic Acids Res. 2023. PMID: 36370099 Free PMC article.
Proteomics Standards Initiative at Twenty Years: Current Activities and Future Work.
Deutsch EW, Vizcaíno JA, Jones AR, Binz PA, Lam H, Klein J, Bittremieux W, Perez-Riverol Y, Tabb DL, Walzer M, Ricard-Blum S, Hermjakob H, Neumann S, Mak TD, Kawano S, Mendoza L, Van Den Bossche T, Gabriels R, Bandeira N, Carver J, Pullman B, Sun Z, Hoffmann N, Shofstahl J, Zhu Y, Licata L, Quaglia F, Tosatto SCE, Orchard SE. Deutsch EW, et al. Among authors: zhu y. J Proteome Res. 2023 Feb 3;22(2):287-301. doi: 10.1021/acs.jproteome.2c00637. Epub 2023 Jan 10. J Proteome Res. 2023. PMID: 36626722 Free PMC article. Review.
Web resources for mass spectrometry-based proteomics.
Chen T, Zhao J, Ma J, Zhu Y. Chen T, et al. Among authors: zhu y. Genomics Proteomics Bioinformatics. 2015 Feb;13(1):36-9. doi: 10.1016/j.gpb.2015.01.004. Epub 2015 Feb 23. Genomics Proteomics Bioinformatics. 2015. PMID: 25721607 Free PMC article. Review.
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