Faculty

Golnaz Vahedi, Ph.D.

faculty photo
Associate Professor of Genetics
Department: Genetics

Contact information
314 BRB II/III
421 Curie Boulevard
Philadelphia, PA 19104
Education:
B.Sc. (Electrical Engineering)
Sharif University of Technology, Iran, 2001.
M.Sc. (Electrical Engineering)
University of Alberta, Canada, 2005.
Ph.D. (Electrical Engineering)
Texas A&M University, Texas, 2009.
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Description of Research Expertise

The overarching goal of the Vahedi laboratory is to understand the molecular mechanisms through which genomic information in our immune cells is interpreted in normal development and further dissect how common genetic variation can lead to misinterpretation of the genetic material in immune mediated diseases, particularly autoimmune disorders. The multidisciplinary nature of our laboratory allows us to exploit computational and cutting-edge experimental approaches and generate unbiased maps of genome organization in primary immune cells in humans and mice. We further follow our hypothesis-generating yet unbiased efforts with experiments dissecting the mechanisms of our predictions using genome editing in mice or cell lines which provides us with an unparalleled opportunity to rigorously define the link between genetics and chromatin organization.

Selected Publications

Wang W, Chandra A, Goldman N, Yoon S, Ferrari EK, Nguyen SC, Joyce EF, Vahedi G.: TCF-1 promotes chromatin interactions across topologically associating domains in T cell progenitors. Nature Immunology 23(7), July 2022.

Yoon, S., Chandra, A. and Vahedi, G.: Stripenn detects architectural stripes from chromatin conformation data using computer vision. Nature Communications 13(1602), March 2022.

Fasolino M, Schwartz GW, Patil AR, Mongia A, Golson ML, Wang YJ, Morgan A, Liu C, Schug J, Liu J, Wu M, Traum D, Kondo A, May CL, Goldman N, Wang W, Feldman M, Moore JH, Japp AS, Betts MR; HPAP Consortium, Faryabi RB, Naji A, Kaestner KH, Vahedi G.: Single-cell multi-omics analysis of human pancreatic islets reveals novel cellular states in Type 1 Diabetes. Nature Metabolism 4(2), February 2022.

Fasolino M., Goldman N., Wang W., Cattau B., Zhou Y., Petrovic J., Link V.M., Cote A., Chandra A., Silverman M., Joyce E.F., Little S.C., the HPAP Consortium, Kaestner K.H., Naji A., Raj A., Henao-Mejia J., Faryabi R.B., and Vahedi G.: Genetic Variation in Type 1 Diabetes Reconfigure the 3D Chromatin Organization of T Cells. Immunity. Cell Press, 52(2): 257-274, February 2020 Notes: Featured on journal's cover. Highlighted on Spotlight in Trends Immunology.

Wang W., Fasolino M., Cattau B., Goldman N., Kong W., Frederick M., McCright S., Kiani K., Fraietta J.A., Vahedi G.: Joint Profiling of Chromatin Accessibility and CAR-T Integration Site Analysis at Population and Single-cell Levels. Proceedings of National Academy of Sciences 117(10): 5442-5452, March 2020.

Johnson J.L., Georgakilas G., Petrovic J., Kurachi M., Cai S., Harly C., Pear W.S., Bhandoola A., Wherry E.J., Vahedi G.: Lineage-determining transcription factor TCF-1 initiates the epigenetic identity of T cells. Immunity. Cell Press, 48(2): 243-257, February 2018 Notes: Featured on journal's cover and received a News and Views. Cited > 129.

Cai S, Georgakilas G, Johnson JL, Vahedi G: A cosine similarity-based method to infer variability of chromatin accessibility at the single-cell level. Frontiers in Genetics Page: 9:319, August 2018.

Pauken, K. E., Sammons, M. A., Odorizzi, P. M., Manne, S., Godec, J., Khan, O., Drake, A. M., Chen, Z., Sen, D., Kurachi, M., Barnitz, R. A., Bartman, C., Bengsch, B., Huang, A. C., Schenkel, J. M., Vahedi, G., Haining, W. N., Berger, S. L., Wherry, E. J.: Epigenetic stability of exhausted T cells limits durability of reinvigoration by PD-1 blockade. Science 354(6316), December 2016.

Vahedi, G., Kanno, Y., Furumoto, Y., Jiang, K., Parker, S. C., Erdos, M. R., Davis, S. R., Roychoudhuri, R., Restifo, N. P., Gadina, M., Tang, Z., Ruan, Y., Collins, F. S., Sartorelli, V., O'Shea, J. J.: Super-enhancers delineate disease-associated regulatory nodes in T cells. Nature 520(7548): 558-62, April 2015.

Vahedi, G., Takahashi, H., Nakayamada, S., Sun, H. W., Sartorelli, V., Kanno, Y., O'Shea, J. J.: STATs shape the active enhancer landscape of T cell populations. Cell 151(5): 981-93, November 2012.

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Last updated: 08/02/2022
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