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Global and Site-Specific Effect of Phosphorylation on Protein Turnover.
Wu C, Ba Q, Lu D, Li W, Salovska B, Hou P, Mueller T, Rosenberger G, Gao E, Di Y, Zhou H, Fornasiero EF, Liu Y. Wu C, et al. Among authors: liu y. Dev Cell. 2021 Jan 11;56(1):111-124.e6. doi: 10.1016/j.devcel.2020.10.025. Epub 2020 Nov 24. Dev Cell. 2021. PMID: 33238149 Free PMC article.
A repository of assays to quantify 10,000 human proteins by SWATH-MS.
Rosenberger G, Koh CC, Guo T, Röst HL, Kouvonen P, Collins BC, Heusel M, Liu Y, Caron E, Vichalkovski A, Faini M, Schubert OT, Faridi P, Ebhardt HA, Matondo M, Lam H, Bader SL, Campbell DS, Deutsch EW, Moritz RL, Tate S, Aebersold R. Rosenberger G, et al. Among authors: liu y. Sci Data. 2014 Sep 16;1:140031. doi: 10.1038/sdata.2014.31. eCollection 2014. Sci Data. 2014. PMID: 25977788 Free PMC article.
Inference and quantification of peptidoforms in large sample cohorts by SWATH-MS.
Rosenberger G, Liu Y, Röst HL, Ludwig C, Buil A, Bensimon A, Soste M, Spector TD, Dermitzakis ET, Collins BC, Malmström L, Aebersold R. Rosenberger G, et al. Among authors: liu y. Nat Biotechnol. 2017 Aug;35(8):781-788. doi: 10.1038/nbt.3908. Epub 2017 Jun 12. Nat Biotechnol. 2017. PMID: 28604659 Free PMC article.
Statistical control of peptide and protein error rates in large-scale targeted data-independent acquisition analyses.
Rosenberger G, Bludau I, Schmitt U, Heusel M, Hunter CL, Liu Y, MacCoss MJ, MacLean BX, Nesvizhskii AI, Pedrioli PGA, Reiter L, Röst HL, Tate S, Ting YS, Collins BC, Aebersold R. Rosenberger G, et al. Among authors: liu y. Nat Methods. 2017 Sep;14(9):921-927. doi: 10.1038/nmeth.4398. Epub 2017 Aug 21. Nat Methods. 2017. PMID: 28825704 Free PMC article.
Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry.
Collins BC, Hunter CL, Liu Y, Schilling B, Rosenberger G, Bader SL, Chan DW, Gibson BW, Gingras AC, Held JM, Hirayama-Kurogi M, Hou G, Krisp C, Larsen B, Lin L, Liu S, Molloy MP, Moritz RL, Ohtsuki S, Schlapbach R, Selevsek N, Thomas SN, Tzeng SC, Zhang H, Aebersold R. Collins BC, et al. Among authors: liu y, liu s. Nat Commun. 2017 Aug 21;8(1):291. doi: 10.1038/s41467-017-00249-5. Nat Commun. 2017. PMID: 28827567 Free PMC article.
Multi-omic measurements of heterogeneity in HeLa cells across laboratories.
Liu Y, Mi Y, Mueller T, Kreibich S, Williams EG, Van Drogen A, Borel C, Frank M, Germain PL, Bludau I, Mehnert M, Seifert M, Emmenlauer M, Sorg I, Bezrukov F, Bena FS, Zhou H, Dehio C, Testa G, Saez-Rodriguez J, Antonarakis SE, Hardt WD, Aebersold R. Liu Y, et al. Nat Biotechnol. 2019 Mar;37(3):314-322. doi: 10.1038/s41587-019-0037-y. Epub 2019 Feb 18. Nat Biotechnol. 2019. PMID: 30778230 Free article.
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