- Mehnert M*, Li W*, Wu C, Salovska B, Liu Y. Combining Rapid Data Independent Acquisition and CRISPR Gene Deletion for Studying Potential Protein Functions: A Case of HMGN1. Proteomics. 2019 Mar 22;:e1800438. doi: 10.1002/pmic.201800438. [Epub ahead of print] PubMed PMID: 30901150.

 

 

- Liu Y#, Y. Mi, T. Mueller, S. Kreibich, E.G. Williams, A. Drogen, C. Borel, M.Frank, PL. Germain, I. Bludau, M. Mehnert, M. Seifert, M. Emmenlauer, I. Sorg, F. Bezrukov, F. Bena, H. Zhou, C. Dehio, G. Testa, J. Saez-Rodriguez, S.E. Antonarakis, W. Hardt & R. Aebersold, Multi-omic measurements of heterogeneity in HeLa cells across laboratories, Nature Biotechnology (2019) (# co-corresponding author)

- Bouchal P, Schubert OT, Faktor J, Capkova L, Imrichova H, Zoufalova K, Paralova V, Hrstka R, Liu Y, Ebhardt HA, Budinska E, Nenutil R, Aebersold R: Breast Cancer Classification Based on Proteotypes Obtained by SWATH Mass Spectrometry. Cell Reports. 2019 Jul 16. PMID: 31315058

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-Ebhardt H, Root A, Liu Y, Gauthier NP, Sander C, Aebersold R (2018), Systems pharmacology using mass spectrometry identifies critical response nodes in prostate cancer, npj Systems Biology and Applications 2018 July 2 https://www.nature.com/articles/s41540-018-0064-1

-Sajic T*, Liu Y*, Arvaniti E, Surinova S, Sethi A, Huttenhain R, Williams EG, Schiess R, Blattmann P, Friedrich B, Omlin A, Gillessen S, Claassen M, Aebersold R (2018), Similarities and differences of blood N-glycoproteins in five solid carcinomas at localized clinical stage analyzed by SWATH-mass spectrometry, Cell Reports, 23(9):2819-2831.e5.

-Liu Y, Borel C, Li L, Müller T, Williams EG., Germain PL, Buljan M, Sajic T, Boersema PJ, Shao W, Faini M, Testa G,  Beyer A, Antonarakis SE & Aebersold R (2017), Systematic proteome and proteostasis profiling in human Trisomy 21 fibroblast cells, Nature Communications, 2017 Oct. doi:10.1038/s41467-017-01422-6.

 

- Liu Y*, Gonzàlez-Porta M*, Santos S, Brazma A, Marioni JC, Aebersold R, Venkitaraman AR, Wickramasinghe VO. (2017) Impact of Alternative Splicing on the Human ProteomeCell reports 20, 1229-1241.

 

- Tan SLW, Chadha S, Liu Y, Gabasova E, Perera D, Ahmed K, Constantinou S, Renaudin X, Lee M, Aebersold R, Venkitaraman AR (2017) A Class of Environmental and Endogenous Toxins Induces BRCA2 Haploinsufficiency and Genome Instability. Cell 169, 1105-1118 e15.

 

- Faktor J, Sucha R, Paralova V, Liu Y, Bouchal P. (2017) Comparison of targeted proteomics approaches for detecting and quantifying proteins derived from human cancer tissues. Proteomics 17(5).

 

- Liu Y*, Beyer A*, Aebersold R (2016) On the dependency of cellular protein levels on mRNA abundance. Cell 165: 535-550

 

- Liu Y, Aebersold R (2016) The interdependence of transcript and protein abundance: new data-new complexities. Molecular systems biology 12: 856

 

- Li C*, Ruan HQ*, Liu Y*, Xu MJ, Dai J, Sheng QH, Tan YX, Yao ZZ, Wang HY, Wu JR, Zeng R (2012) Quantitative proteomics reveal up-regulated protein expression of the SET complex associated with hepatocellular carcinoma. Journal of proteome research 11: 871-885

 

- Liu Y*, Li C*, Xing Z, Yuan X, Wu Y, Xu M, Tu K, Li Q, Wu C, Zhao M, Zeng R (2010) Proteomic mining in the dysplastic liver of WHV/c-myc mice--insights and indicators for early hepatocarcinogenesis. The FEBS journal 277: 4039-4053