Sydney M Shaffer, MD, PhD

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Assistant Professor of Pathology and Laboratory Medicine
Department: Pathology and Laboratory Medicine
Graduate Group Affiliations

Contact information
University of Pennsylvania
Philadelphia, PA 19104
BS (Chemical and Biomolecular Engineering)
Georgia Institute of Technology , 2010.
PhD (Bioengineering)
University of Pennsylvania, 2016.
MD (Medicine)
Perelman School of Medicine, University of Pennsylvania, 2018.
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Selected Publications

Shaffer SM, Sussman RT, Azzato EM, DeSloover D, Farooqi MS, Meyer A, Liebeman DB, Bigdeli A, Paolillo C, Sukhadia S, Rosenbaum JN, Daber RD, Morrissette JD: Validation of a next-generation sequencing oncology panel optimized for low input DNA. Cancer Genetics 228-229: 55-63, Dec 2018.

Shaffer SM, Emert B, Sizemore AE, Gupte R, Torre E, Bassert DS, Raj A.: Memory sequencing heritable single cell gene expression programs associated with distinct cellular behaviors. bioRxiv July 2018 Notes: Epub ahead of print.

Huang M, Wang J, Torre EA, Dueck H, Shaffer SM, Bonasio R, Murray J, Raj A, Li M, Zhang NR.: SAVER: Gene expression recovery for single cell RNA sequencing. Nature Methods June 2018.

Wang J, Huang M, Torre E, Dueck H, Shaffer SM, Murray J, Raj A, LI M, Zhang NR: Gene expression distribution deconvolution in single cell RNA sequencing. Proceedings of National Academy of Sciences 115(28): E6437-E6446, June 2018 Notes: published ahead of print June 26, 2018

Shaffer S, Emert B, Gupte R. Raj A: Single cell heterogeneity with transcriptional memory confers resistance to cancer therapy. (Poster). American Association for Cancer Research Annual Meeting, Chicago, IL April 2018.

Torre EA, Dueck H, Shaffer SM, Gospocic J, Gupte R, Bonasio R, Kim J, Murray J, Raj A.: Rare cell detection by single-cell RNA sequencing as guided by single-molecule RNA FISH. Cell Systems 6(2): 171-179.e5, February 2018 Notes: doi: 10.1016/j.cels.2018.01.014. Epub 2018 Feb 14.

Shffer SM, Dunagin M, Torborg SR, Krepler C, Herlyn M, Raj A.: Rare cell variability and drug induced reprogramming as a mode of cancer drug resistance. (Podium). Biomedical Engineering Society Annual Meeting, Phoenix, AZ October 2017.

Perego M, Maurer M, Wang J, Shaffer SM, Muller A, Parapatics K, Li L, Hristova D, Shin S, Keeney F, Liu S, Xu X, Raj A, Jensen J, Bennett K, Wagner S, Somasundaram R, Herlyn M.: A slow-cycling subpopulation of melanoma cells with highly invasive properties. Oncogene 37(3): 302-312, September 2017 Notes: doi: 10.1038/onc.2017.341. Epub 2017 Sep 18.

Shaffer S, Dunagin M, Torborg S, Torre E, Emert B, Krepler C, Herlyn N. Raj A: Rare cell variability and drug-induced reprogramming as a mode of cancer drug resistance. (Poster & Podium) Annual q-bio Conference, New Brunswick, NJ July 2017.

Shaffer SM, Dunagin M, Torborg SR, Torre E, Emert B, Krepler C, Herlyn M, Raj A: Resistance to targeted therapy arises from pre-existing rare-cell expression variability followed by drug-induced epigenetic reprogramming. (Podium). Single Cell Analysis Investigator's Meeting at National Institute of Health, Bethesda, MD June 2017.

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Last updated: 11/09/2018
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