Ronglai Shen, PhD

Associate Attending Biostatistician

Ronglai Shen, PhD

Office Phone

646-888-8243

Education

University of Michigan

Current Research Interests

Dr. Shen’s research interest lies in developing statistical and computational genomics approaches and applications to translational cancer research. She has developed data integration methods for defining molecular subtypes of cancer and associated biomarkers across multiple “omic” data types simultaneously characterizing genomic, epigenomic, transcriptomic, and proteomic aberrations in a tumor. Her method has been used for integrative subtype analysis of breast, prostate, lung, stomach, endometrial, skin, and liver cancers in large-scale cancer genome consortium studies including the NCI/NHGRI Cancer Genome Atlas (TCGA) and the Canada-UK Molecular Taxonomy of Breast Cancer International Consortium (METABRIC). Her recent work focuses on tumor clonal heterogeneity analysis. Together with Dr. Venkatraman Seshan, she has developed methods to unravel allele-specific copy number aberrations and clonal heterogeneity within a tumor from DNA sequencing of tumor-normal pairs that can be applied to whole-genome, whole-exome and capture sequencing platforms. Its application has shed light on the clonal status of somatic mutations and copy number alterations in lung and breast cancers as a biomarker for disease progression. Her recent research interest also includes basket trial design for biomarker-driven clinical trials in collaboration with Drs. Mithat Gonen, Colin Begg, and Alexia Iasonos.

Publications

Selected peer-reviewed publications:


  1. FACETS: allele-specific copy number and clonal heterogeneity analysis tool for high-throughput DNA sequencing. Shen R, Seshan VE. Nucleic Acids Res. 2016 Sep 19;44(16):e131. doi: 10.1093/nar/gkw520. Epub 2016 Jun 7.

  2. Next-Generation Sequencing of Stage IV Squamous Cell Lung Cancers Reveals an Association of PI3K Aberrations and Evidence of Clonal Heterogeneity in Patients with Brain Metastases. Paik PK, Shen R, Won H, Rekhtman N, Wang L, Sima CS, Arora A, Seshan V, Ladanyi M, Berger MF, Kris MG. Cancer Discov. 2015 Jun;5(6):610-21.

  3. An efficient basket trial design. Cunanan KM, Iasonos A, Shen R, Begg CB, Gönen M. Stat Med. 2017 May 10;36(10):1568-1579

  4. SPARSE INTEGRATIVE CLUSTERING OF MULTIPLE OMICS DATA SETS. Shen R, Wang S, Mo Q. Ann Appl Stat. 2013 Apr 9;7(1):269-294

  5. Pattern discovery and cancer gene identification in integrated cancer genomic data. Mo Q, Wang S, Seshan VE, Olshen AB, Schultz N, Sander C, Powers RS, Ladanyi M, Shen R. Proc Natl Acad Sci U S A. 2013 Mar 12;110(11):4245-50

For a complete list of publications:
http://www.ncbi.nlm.nih.gov/sites/myncbi/ronglai.shen.1/bibliography/40481479/public/?sort=date&direction=ascending

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