| DIA-Umpire: comprehensive computational framework for data-independent acquisition proteomics CC Tsou, D Avtonomov, B Larsen, M Tucholska, H Choi, AC Gingras, ... Nature methods 12 (3), 258-264, 2015 | 703 | 2015 |
| A multicenter study benchmarks software tools for label-free proteome quantification P Navarro, J Kuharev, LC Gillet, OM Bernhardt, B MacLean, HL Röst, ... Nature biotechnology 34 (11), 1130-1136, 2016 | 354 | 2016 |
| Large-scale determination of absolute phosphorylation stoichiometries in human cells by motif-targeting quantitative proteomics CF Tsai, YT Wang, HY Yen, CC Tsou, WC Ku, PY Lin, HY Chen, ... Nature communications 6 (1), 1-8, 2015 | 192 | 2015 |
| mapDIA: Preprocessing and statistical analysis of quantitative proteomics data from data independent acquisition mass spectrometry G Teo, S Kim, CC Tsou, B Collins, AC Gingras, AI Nesvizhskii, H Choi Journal of proteomics 129, 108-120, 2015 | 166 | 2015 |
| RNA editing derived epitopes function as cancer antigens to elicit immune responses M Zhang, J Fritsche, J Roszik, LJ Williams, X Peng, Y Chiu, CC Tsou, ... Nature communications 9 (1), 1-10, 2018 | 145 | 2018 |
| IDEAL-Q, an automated tool for label-free quantitation analysis using an efficient peptide alignment approach and spectral data validation CC Tsou, CF Tsai, YH Tsui, PR Sudhir, YT Wang, YJ Chen, JY Chen, ... Molecular & Cellular Proteomics 9 (1), 131-144, 2010 | 140 | 2010 |
| Data independent acquisition analysis in ProHits 4.0 G Liu, JDR Knight, JP Zhang, CC Tsou, J Wang, JP Lambert, B Larsen, ... Journal of proteomics 149, 64-68, 2016 | 82 | 2016 |
| QPROT: Statistical method for testing differential expression using protein-level intensity data in label-free quantitative proteomics H Choi, S Kim, D Fermin, CC Tsou, AI Nesvizhskii Journal of proteomics 129, 121-126, 2015 | 79 | 2015 |
| Untargeted, spectral library‐free analysis of data‐independent acquisition proteomics data generated using Orbitrap mass spectrometers CC Tsou, CF Tsai, GC Teo, YJ Chen, AI Nesvizhskii Proteomics 16 (15-16), 2257-2271, 2016 | 78 | 2016 |
| The HLA ligandome landscape of chronic myeloid leukemia delineates novel T-cell epitopes for immunotherapy T Bilich, A Nelde, L Bichmann, M Roerden, HR Salih, DJ Kowalewski, ... Blood, The Journal of the American Society of Hematology 133 (6), 550-565, 2019 | 77 | 2019 |
| Fast VQ codebook search algorithm for grayscale image coding YC Hu, BH Su, CC Tsou Image and Vision Computing 26 (5), 657-666, 2008 | 76 | 2008 |
| An informatics-assisted label-free quantitation strategy that depicts phosphoproteomic profiles in lung cancer cell invasion YT Wang, CF Tsai, TC Hong, CC Tsou, PY Lin, SH Pan, TM Hong, ... Journal of proteome research 9 (11), 5582-5597, 2010 | 69 | 2010 |
| An informatics-assisted label-free approach for personalized tissue membrane proteomics: case study on colorectal cancer CL Han, JS Chen, EC Chan, CP Wu, KH Yu, KT Chen, CC Tsou, CF Tsai, ... Molecular & Cellular Proteomics 10 (4), 2011 | 68 | 2011 |
| Functional proteogenomics reveals biomarkers and therapeutic targets in lymphomas DCM Rolland, V Basrur, YK Jeon, C McNeil-Schwalm, D Fermin, ... Proceedings of the National Academy of Sciences 114 (25), 6581-6586, 2017 | 52 | 2017 |
| New targeted approaches for the quantification of data‐independent acquisition mass spectrometry R Bruderer, J Sondermann, CC Tsou, A Barrantes‐Freer, C Stadelmann, ... Proteomics 17 (9), 1700021, 2017 | 37 | 2017 |
| Mining Missing Membrane Proteins by High-pH Reverse-Phase StageTip Fractionation and Multiple Reaction Monitoring Mass Spectrometry RB Kitata, BRT Dimayacyac-Esleta, WK Choong, CF Tsai, TD Lin, ... Journal of proteome research 14 (9), 3658-3669, 2015 | 33 | 2015 |
| Quantitative immunopeptidomics reveals a tumor stroma–specific target for T cell therapy GB Kim, J Fritsche, S Bunk, A Mahr, F Unverdorben, K Tosh, H Kong, ... Science translational medicine 14 (660), eabo6135, 2022 | 31 | 2022 |
| Pitfalls in HLA ligandomics–How to catch a li (e) gand J Fritsche, DJ Kowalewski, L Backert, F Gwinner, S Dorner, M Priemer, ... Molecular & Cellular Proteomics, 100110, 2021 | 29 | 2021 |
| Tumor‐selective altered glycosylation and functional attenuation of CD73 in human hepatocellular carcinoma KP Alcedo, A Guerrero, V Basrur, D Fu, ML Richardson, JS McLane, ... Hepatology communications 3 (10), 1400-1414, 2019 | 29 | 2019 |
| Label-free quantitative proteomics and N-glycoproteomics analysis of KRAS-activated human bronchial epithelial cells PR Sudhir, CH Chen, MP Kumari, MJ Wang, CC Tsou, TY Sung, JY Chen, ... Molecular & cellular proteomics 11 (10), 901-915, 2012 | 29 | 2012 |
Alexey NesvizhskiiGodfrey D. Stobbe Professor of Bioinformatics @ University of MichiganPatvirtintas el. paštas umich.edu
