Professor

Oncology Department, School of Medicine
Division Director and Associate Cancer Center Director in Quantitative Sciences
Co-Director, Convergence Institute

RESEARCH OVERVIEW

Dr. Fertig directs an NCI-funded hybrid computational and experimental lab in the systems biology of cancer and therapeutic response for a new predictive medicine paradigm. Her wet lab develops time course models of therapeutic resistance and performs single cell technology development. Her computational methods blend mathematical modeling and artificial intelligence to determine the biomarkers and molecular mechanisms of therapeutic resistance from multi-platform genomics data. These techniques have broad applicability beyond her resistance models, including notably to the analysis of clinical biospecimens, developmental biology, and neuroscience. 

Cancer Biology | Genetics, Genomics and Gene Regulation | Translational Research

Selected Publications

Deshpande A, Loth M, Sidiropoulos DN, Zhang S, Yuan L, Bell A, Zhu Q, Ho WJ, Santa-Maria C, Gilkes D, Williams SR, Uytingco CR, Chew J, Hartnett A, Bent ZW, Favorov AV, Popel AS, Yarchoan M, Zheng L, Jaffee EM, Anders R, Danilova L, Stein-O’Brien G, Kagohara LT, Fertig EJ. Uncovering the spatial landscape of molecular interactions within the tumor microenvironment through latent spaces. Cell Systems, 2023.

Davis-Marcisak EF, Fitzgerald AA, Kessler MD, Danilova L, Jaffee EM, Zaidi N, Weiner LM, Fertig EJ. Transfer learning between preclinical models and human tumors identifies a conserved NK cell activation signature in anti-CTLA-4 responsive tumors. Genome Medicine, 2021.

Ho WJ, Zhu Q, Durham J, Popovic A, Xavier S, Leatherman J, Mohan A, Mo G, Zhang S, Gross N, Charmsaz S, Lin D, Quong D, Wilt B, Kamel IR, Weiss M, Philosophe B, Burkhart R, Burns WR, Shubert C, Ejaz A, He J, Deshpande A, Danilova L, Stein-O'Brien G, Sugar EA, Laheru DA, Anders RA, Fertig EJ, Jaffee EM, Yarchoan M. Neoadjuvant Cabozantinib and Nivolumab Converts Locally Advanced HCC into Resectable Disease with Enhanced Antitumor Immunity. Nature Cancer, 2021.

Davis-Marcisak EF, Deshpande A, Stein-O'Brien GL, Ho WJ, Laheru D, Jaffee EM, Fertig EJ, Kagohara LT. From bench to bedside: Single-cell analysis for cancer immunotherapy. Cancer Cell, 2021.

Stein-O'Brien GL, Clark BS, Sherman T, Zibetti C, Hu Q, Sealfon R, Liu S, Qian J, Colantuoni C, Blackshaw S, Goff LA, Fertig EJ. Decomposing Cell Identity for Transfer Learning across Cellular Measurements, Platforms, Tissues, and Species. Cell Systems, 2019.

Learn More

NCBI Bibliography | Faculty Profile | Lab Website | GitHub | Google Scholar | Twitter