Robert Babak Faryabi

faculty photo
Assistant Professor of Pathology and Laboratory Medicine at the Hospital of the University of Pennsylvania
Department: Pathology and Laboratory Medicine

Contact information
Room 553 BRB II/III, 421 Curie Boulevard
Philadelphia, PA 19104-6160
Philadelphia, PA 19104
Office: (215)573-8220
Education:
BSc (Electrical Engineering)
Sharif University of Technology, Tehran, Iran, 1995.
MSc (Electrical Engineering)
Sharif University of Technology, Tehran, Iran, 1997.
PhD (Computational Biology)
Texas A&M University, College Station, TX, 2009.
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Description of Clinical Expertise

Cancer Genomics

Description of Research Expertise

We are a computational biology lab with focus on cancer epigenomics. Our research spans the areas of cancer biology, computational biology and machine learning. The overarching goal of our lab is to explore how oncogenic cell signaling pathways dysregulate enhancers' landscape of a tumor and understand their function in cancer.

The lab is specifically interested in lymphoma and leukemia which are the cancers of hematopoietic system. In addition to genetic alterations, abnormalities at epigenetic levels may give rise to these malignancies. We use genomics to identify the genetic variations in these tumor types and further elucidate how these genetic events alter a tumor's epigenome using population and single-cell epigenomics techniques.

As a member of Center for Personalized Diagnostics, we are also developing computational oncology frameworks to enrich clinical significance of diagnostic tumor genomics. Our goal is to advance the paradigm of personalized medicine by leveraging big data analytics to drive correlation between the a tumor genome and clinical covariates.

To learn more about our research interests and specifics of our projects check our lab's website

Selected Publications

Russell J.H. Ryan*, Jelena Petrovic*, Dylan M. Rausch, Yeqiao Zhou, Caleb Lareau, Michael J. Kluk, Amanda L. Christie, Winston Lee, Bingqian Guo, Laura K.H. Donohue, Shawn Gillespie, Valentina Nardi, Ephraim P. Hochberg, Stephen C. Blacklow, David M. Weinstock, Robert B. Faryabi, Bradley E. Bernstein, Jon C. Aster, and Warren S. Pear: A Unique B-cell Regulome Links Notch to Downstream Oncogenic Pathways in Small B-cell Lymphomas. Cell Report 2017 Accepted for Publication.

Delphine Rolland, Venkatesha Basrur, Yoon Kyung Jeon, Carla McNeil-Schwalm, Damian Fermin, Kevin Conlon, Yeqiao Zhou, Samuel Ng, Chih-Chiang Tsou, Noah Brown, Dafydd Thomas, Nathanael Bailey, Gilbert Omenn, Alexey Nesvizhskii, David Root, David Weinstock, Robert B. Faryabi, and Megan Lim, Kojo Elenitoba-Johnson: Functional proteogenomics reveals biomarkers and therapeutic targets in lymphomas. Proceedings of the National Academy of Sciences May 2017.

Barlow Jacqueline H*, Faryabi Robert B*, Callén Elsa, Wong Nancy, Malhowski Amy, Chen Hua Tang, Gutierrez-Cruz Gustavo, Sun Hong-Wei, McKinnon Peter, Wright George, Casellas Rafael, Robbiani Davide F, Staudt Louis, Fernandez-Capetillo Oscar, Nussenzweig André : Identification of early replicating fragile sites that contribute to genome instability. Cell 152(3): 620-32, Jan 2013 *co-first author.

Santos Margarida A, Faryabi Robert B, Ergen Aysegul V, Day Amanda M, Malhowski Amy, Canela Andres, Onozawa Masahiro, Lee Ji-Eun, Callen Elsa, Gutierrez-Martinez Paula, Chen Hua-Tang, Wong Nancy, Finkel Nadia, Deshpande Aniruddha, Sharrow Susan, Rossi Derrick J, Ito Keisuke, Ge Kai, Aplan Peter D, Armstrong Scott A, Nussenzweig André: DNA-damage-induced differentiation of leukaemic cells as an anti-cancer barrier. Nature 514(7520): 107-11, Oct 2014.

Callen Elsa, Faryabi Robert B, Luckey Megan, Hao Bingtao, Daniel Jeremy A, Yang Wenjing, Sun Hong-Wei, Dressler Greg, Peng Weiqun, Chi Hongbo, Ge Kai, Krangel Michael S, Park Jung-Hyun, Nussenzweig André: The DNA damage- and transcription-associated protein paxip1 controls thymocyte development and emigration. Immunity 37(6): 971-85, Dec 2012.

R.B. Faryabi G. Vahedi, A. Datta, J.-F. Chamberland, E. R. Dougherty: Recent Advances in the Control of Markovian Gene Regulatory Networks. Current Genomics 10(7): 540-547, Nov 2009.

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Last updated: 10/05/2017
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