Matthew Chambers

Proteogenomic analysis of human colon cancer reveals new therapeutic opportunities.

Vasaikar S^#, Huang C^#, Wang X^#, Petyuk VA^#, Savage SR^#, Wen B, Dou Y, Zhang Y, Shi Z, Arshad OA, Gritsenko MA, Zimmerman LJ, McDermott JE, Clauss TR, Moore RJ, Zhao R, Monroe ME, Wang YT, Chambers MC, Slebos RJC, Lau KS, Mo Q, Ding L, Ellis M, Thiagarajan M, Kinsinger CR, Rodriguez H, Smith RD, Rodland KD^@, Liebler DC^@, Liu T^@, Zhang B^@, Clinical Proteomic Tumor Analysis Consortium.

Cell, 177(4):1035-1049, 2019 (# first authors; @ corresponding authors)

Detection of proteome diversity resulted from alternative splicing is limited by trypsin cleavage specificity.

Wang X, Codreanu SG, Wen B, Li K, Chambers M, Liebler DC, Zhang B.

Mol Cell Proteomics, 17(3):422-430, 2018

Colorectal cancer cell line proteomes are representative of primary tumors and predict drug sensitivity.

Wang J^#, Mouradov D^#, Wang X^#, Jorissen RN, Chambers MC, Zimmerman LJ, Vasaikar S, Love CG, Li S, Lowes K, Leuchowius KJ, Jousset H, Weinstock J, Yau C, Mariadason J, Shi Z, Ban Y, Chen X, Coffey RJC, Slebos RJC, Burgess AW, Liebler DC, Zhang B^@, Sieber OM^@.

Gastroenterology, 153(4):1082-1095, 2017 (# first authors; @ corresponding authors)

proBAMsuite, a bioinformatics framework for genome-based representation and analysis of proteomics data.

Wang X, Slebos RJ, Chambers MC, Tabb DL, Liebler DC, Zhang B.

Mol Cell Proteomics, 15:1164-1175, 2016

Reproducibility of Differential Proteomic Technologies in CPTAC Fractionated Xenografts

Tabb DL, Wang X, Carr SA, Clauser KR, Mertins P, Chambers MC, Holman JD, Wang J, Zhang B, Zimmerman LJ, Chen X, Gunawardena HP, Davies SR, Ellis MJ, Li S, Townsend RR, Boja ES, Ketchum KA, Kinsinger CR, Mesri M, Rodriguez H, Liu T, Kim S, McDermott JE, Payne SH, Petyuk VA, Rodland KD, Smith RD, Yang F, Chan DW, Zhang B, Zhang H, Zhang Z, Zhou JY, Liebler DC.

J Proteome Res, 15:691-706, 2016

Proteogenomic characterization of human colon and rectal cancer.

Zhang B, Wang J, Wang X, Zhu J, Liu Q, Shi Z, Chambers MC, Zimmerman LJ, Shaddox KF, Kim S, Davies SR, Wang S, Wang P, Kinsinger CR, Rivers RC, Rodriguez H, Townsend RR, Ellis MJ, Carr SA, Tabb DL, Coffey RJ, Slebos RJ, Liebler DC; the National Cancer Institute Clinical Proteomics Tumor Analysis Consortium (NCI CPTAC).

Nature, 513:382-387, 2014

IDPQuantify: Combining precursor intensity with spectral counts for protein and peptide quantification.

Chen YY, Chambers MC, Li M, Ham AJ, Turner JL, Zhang B, Tabb DL.

J Proteome Res, 12:4111-4121, 2013