Jing Zhu

A community effort to identify and correct mislabeled samples in proteogenomic studies.

Yoo S^#, Shi Z^#, Wen B^#, Kho S^#, Pan R, Feng H, Chen H, Carlsson A, Edén P, Ma W, Raymer M, Maier EJ, Tezak Z, Johanson E, Hinton D, Rodriguez H, Zhu J, Boja E, Wang P^@, Zhang B^@.

Patterns, 100245, 2021. (# first authors; @ corresponding authors)

Integrated Proteogenomic Characterization across Major Histological Types of Pediatric Brain Cancer.

Petralia F, Tignor N, Reva B, Koptyra M, Chowdhury S, Rykunov D, Krek A, Ma W, Zhu Y, Ji J, Calinawan A, Whiteaker JR, Colaprico A, Stathias V, Omelchenko T, Song X, Raman P, Guo Y, Brown MA, Ivey RG, Szpyt J, Guha Thakurta S, Gritsenko MA, Weitz KK, Lopez G, Kalayci S, Gümüş ZH, Yoo S, da Veiga Leprevost F, Chang HY, Krug K, Katsnelson L, Wang Y, Kennedy JJ, Voytovich UJ, Zhao L, Gaonkar KS, Ennis BM, Zhang B, Baubet V, Tauhid L, Lilly JV, Mason JL, Farrow B, Young N, Leary S, Moon J, Petyuk VA, Nazarian J, Adappa ND, Palmer JN, Lober RM, Rivero-Hinojosa S, Wang LB, Wang JM, Broberg M, Chu RK, Moore RJ, Monroe ME, Zhao R, Smith RD, Zhu J, Robles AI, Mesri M, Boja E, Hiltke T, Rodriguez H, Zhang B, Schadt EE, Mani DR, Ding L, Iavarone A, Wiznerowicz M, Schürer S, Chen XS, Heath AP, Rokita JL, Nesvizhskii AI, Fenyö D, Rodland KD, Liu T, Gygi SP, Paulovich AG, Resnick AC, Storm PB, Rood BR, Wang P; Children’s Brain Tumor Network; Clinical Proteomic Tumor Analysis Consortium.

Cell, 183(7):1962-1985.e31., 2020.

Empowering biologists with multi-omics data: colorectal cancer as a paradigm.

Zhu J, Shi Z, Wang J, Zhang B.

Bioinformatics, 31:1436-1443, 2015

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

NFAT transcriptional activity is associated with metastatic capacity in colon cancer.

Tripathi MK, Deane NG, Zhu J, An H, Mima S, Wang X, Padmanabhan S, Shi Z, Prodduturi N, Ciombor KK, Chen X, Washington MK, Zhang B^@, Beauchamp RD^@. (@ co-corresponding authors)

Cancer Res, 74:6947-6957, 2014

Alkylation damageby lipid electrophilestargets functional protein systems.

Codreanu SG, Ullery JC, Zhu J, TallmanKA, Beavers WN, Porter NA, Marnett LJ, Zhang B, Liebler DC.

Mol Cell Proteomics, 13:849-859, 2014

RNA-seq data analysis at the gene and CDS levels provides a comprehensive view of transcriptome responses induced by 4-hydroxynonenal.

Liu Q, Ullery J, Zhu J, Liebler DC, Marnett LJ, Zhang B.

Mol Biosyst, 9:3036-3046, 2013

Deciphering genomic alterations in colorectal cancer through transcriptional subtype-based network analysis.

Zhu J, Wang J, Shi Z, Franklin JL, Deane NG, Coffey RJ, Beauchamp RD, Zhang B.

PLoS One, 8:e79282, 2013