Yingdong Zhao, Ph.D.

Biography

Yingdong Zhao, Ph.D., is Chief of Computational and Systems Biology Branch, Biometric Research Program, Division of Cancer Treatment and Diagnosis, National Cancer Institute, U.S. National Institutes of Health. He earned his Ph.D. in Biochemistry and Biophysics from the University of North Carolina at Chapel Hill. In 1998, he joined NCI as a postdoctoral research fellow in computational biology and bioinformatics. He transitioned to a full-time position at NCI in 2000. With over 100 peer-reviewed publications and book chapters, he is recognized as an expert in bioinformatics and computational biology. His research focuses on biomarker discovery, the mechanisms of drug resistance in cancer treatment, survival prognostic and predictive modeling, machine learning applications, T-cell epitope prediction, and the development of bioinformatics tools.

Selected publications

1. Konaté MM, Krushkal J, Li MC, Chen L, Kotliarov Y, Palmisano A, Pauly R, Xie Q, Williams PM, McShane LM, Zhao Y. Insights into gemcitabine resistance in pancreatic cancer: association with metabolic reprogramming and TP53 pathogenicity in patient derived xenografts. J Transl Med 22, 733 (2024).
2. Naghavian R, Faigle W, Oldrati P, Wang J, Toussaint NC, Qiu Y, Medici G, Wacker M, Freudenmann LK, Bonté PE, Weller M, Regli L, Amigorena S, Rammensee HG, Walz JS, Brugger SD, Mohme M, Zhao Y, Sospedra M, Neidert MC, Martin R. Microbial peptides activate tumour-infiltrating lymphocytes in glioblastoma. Nature 617, 807–817 (2023).
3. Zhang P, Palmisano A, Kumar R, Li MC, Doroshow JH, Zhao Y. TPWshiny: an interactive R/Shiny app to explore cell line transcriptional responses to anti-cancer drugs. Bioinformatics 38 (2), 570-572 (2022).
4. Zhao, Y, Li, MC, Konaté, MM, Chen L, Das B, Karlovich C, Williams PM, Evrard YA, Doroshow JH, McShane LM. TPM, FPKM, or Normalized Counts? A Comparative Study of Quantification Measures for the Analysis of RNA-seq Data from the NCI Patient-Derived Models Repository. J Transl Med 19, 269 (2021).
5. Hu-Lieskovan S, Bhaumik S, Dhodapkar K, Grivel J, Gupta S, Hanks BA, Janetzki S, Kleen TO, Koguchi Y, Lung AW, Maccalli C, Mahnke YD, Novosiadly RD, Selvan SR, Sims T, Zhao Y, Maecker HT. SITC cancer immunotherapy resource document: a compass in the land of biomarker discovery. J Immunother Cancer 8(2):e000705 (2020).