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Hui-Yin Chang
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Integrated proteogenomic characterization of clear cell renal cell carcinoma
DJ Clark, SM Dhanasekaran, F Petralia, J Pan, X Song, Y Hu, ...
Cell 179 (4), 964-983. e31, 2019
4362019
Proteogenomic characterization of endometrial carcinoma
Y Dou, EA Kawaler, DC Zhou, MA Gritsenko, C Huang, L Blumenberg, ...
Cell 180 (4), 729-748. e26, 2020
3182020
Philosopher: a versatile toolkit for shotgun proteomics data analysis
F da Veiga Leprevost, SE Haynes, DM Avtonomov, HY Chang, ...
Nature methods 17 (9), 869-870, 2020
2692020
Proteogenomic insights into the biology and treatment of HPV-negative head and neck squamous cell carcinoma
C Huang, L Chen, SR Savage, RV Eguez, Y Dou, Y Li, ...
Cancer cell 39 (3), 361-379. e16, 2021
2092021
Integrated proteogenomic characterization across major histological types of pediatric brain cancer
F Petralia, N Tignor, B Reva, M Koptyra, S Chowdhury, D Rykunov, A Krek, ...
Cell 183 (7), 1962-1985. e31, 2020
1962020
Metabolite identification for mass spectrometry-based metabolomics using multiple types of correlated ion information
KS Lynn, ML Cheng, YR Chen, C Hsu, A Chen, TM Lih, HY Chang, ...
Analytical chemistry 87 (4), 2143-2151, 2015
812015
Quantitative proteomic landscape of metaplastic breast carcinoma pathological subtypes and their relationship to triple-negative tumors
SI Djomehri, ME Gonzalez, F da Veiga Leprevost, SR Tekula, HY Chang, ...
Nature communications 11 (1), 1723, 2020
722020
Integrated proteogenomic characterization of clear cell renal cell carcinoma
DJ Clark, SM Dhanasekaran, F Petralia, J Pan, X Song, Y Hu, ...
Cell 180 (1), 207, 2020
522020
Clinical proteomic tumor analysis consortium. Integrated proteogenomic characterization of clear cell renal cell carcinoma
DJ Clark, SM Dhanasekaran, F Petralia, J Pan, X Song, Y Hu, ...
Cell 179 (4), 964-983, 2019
362019
iMet-Q: a user-friendly tool for label-free metabolomics quantitation using dynamic peak-width determination
HY Chang, CT Chen, TM Lih, KS Lynn, CG Juo, WL Hsu, TY Sung
PLOS one 11 (1), e0146112, 2016
262016
Crystal-C: a computational tool for refinement of open search results
HY Chang, AT Kong, F da Veiga Leprevost, DM Avtonomov, SE Haynes, ...
Journal of proteome research 19 (6), 2511-2515, 2020
252020
Identification of tyrosine-phosphorylated proteins associated with lung cancer metastasis using label-free quantitative analyses
HY Wu, VS Tseng, LC Chen, HY Chang, IC Chuang, YG Tsay, PC Liao
Journal of Proteome Research 9 (8), 4102-4112, 2010
172010
MAGIC-web: a platform for untargeted and targeted N-linked glycoprotein identification
TM Lih, WK Choong, CC Chen, CW Cheng, HN Lin, CT Chen, HY Chang, ...
Nucleic acids research 44 (W1), W575-W580, 2016
152016
Informatics view on the challenges of identifying missing proteins from shotgun proteomics
WK Choong, HY Chang, CT Chen, CF Tsai, WL Hsu, YJ Chen, TY Sung
Journal of Proteome Research 14 (12), 5396-5407, 2015
152015
Comparative evaluation of proteome discoverer and FragPipe for the TMT-based proteome quantification
T He, Y Liu, Y Zhou, L Li, H Wang, S Chen, J Gao, W Jiang, Y Yu, W Ge, ...
Journal of proteome research 21 (12), 3007-3015, 2022
132022
ITop-Q: an intelligent tool for top-down proteomics quantitation using DYAMOND algorithm
HY Chang, CT Chen, CL Ko, YJ Chen, YJ Chen, WL Hsu, CG Juo, ...
Analytical chemistry 89 (24), 13128-13136, 2017
22017
Integrated proteogenomic characterization across seven histological types of pediatric brain tumors
F Petralia, N Tignor, B Reva, P Raman, S Chowdhury, D Rykunov, A Krek, ...
Cancer Research 80 (16_Supplement), 445-445, 2020
12020
Tailored therapeutic decision of rheumatoid arthritis using proteomic strategies: how to start and when to stop?
SF Chen, FC Yeh, CY Chen, HY Chang
Clinical Proteomics 20 (1), 22, 2023
2023
Implementing the MSFragger Search Engine as a Node in Proteome Discoverer
HY Chang, SE Haynes, F Yu, AI Nesvizhskii
Journal of Proteome Research 22 (2), 520-525, 2022
2022
Multi-Q 2: automated and robust isobaric labeling quantitation analysis with enhanced graphical visualization of protein ratio clustering
CT Chen, CW Cheng, WJ Hsu, HY Chang, CL Ko, TM Lih, YJ Chen, ...
2017
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Articles 1–20