American Statistical Association
New York City
Metropolitan Area Chapter

Memorial Sloan Kettering Cancer Center
Department of Biostatistics and
Human Oncology & Pathogenesis Program (HOPP)
Joint Research Seminar


Shirley Liu, Ph.D.
Professor of Biostatistics and Computational Biology
Harvard School of Public Health
Dana-Farber Cancer Institute

HIDDEN CANCER IMMUNOLOGY INSIGHTS FROM TUMOR RNA-SEQ

I will introduce our work in mining and integrating large-scale tumor molecular profiles to inform cancer immunology and immunotherapy. Tumor RNA sequencing has become cost effective over the years, and I will discuss three algorithms that we developed to extract useful insights from treatment naïve RNA-seq samples in The Cancer Genome Atlas. First, TIMER can estimate immune cell components in tumors, and a webserver has been created for users to explore immune infiltration across TCGA tumors and make inference on user-provided samples. Second, TRUST can assemble T cell receptor (TCR) and B cell receptor (BCR) complementarity-determining regions (CDR3s) from unselected bulk tumor RNA-seq data. Third, TIDE derived tumor immune dysfunction and tumor immune exclusion gene expression signatures from pretreatment tumors to predict patient response to anti-PD1 and anti-CTLA4 treatment. Our work indicates that tumor RNA-seq, even on treatment na├»ve tumors, is cost effective to inform tumor microenvironment and tumor immunity.


Date: Wednesday, June 5, 2019
Time: 2:00 - 3:00 P.M.
Location: Memorial Sloan Kettering Cancer Center
Zuckerman Research Center, Room 105
417 East 68th Street
(Between First & York Avenues)
New York, New York

**Outside visitors please email koppenar@mskcc.org for building access. You must be on the security list to enter the floor.

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