Publications
Topologically associating domains are disrupted by evolutionary genome rearrangements forming species-specific enhancer connections in mice and humans
Gilbertson SE, Walter HC, Gardner K, Wren SN, Vahedi G, Weinmann AS.
Cell Reports
2022
Stripenn detects architectural stripes from chromatin conformation data using computer vision
Yoon, S., Chandra, A. and Vahedi, G.
Nature Communications
2022
Single-cell multi-omics analysis of human pancreatic islets reveals novel cellular states in type 1 diabetes
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.
Nature Metabolism
2022
Transcription factors combine to paint the methylation landscape
Goldman, N., Chandra, A., and Vahedi, G.
Trends in Immunology
2021
BRD4 orchestrates genome folding to promote neural crest differentiation
Linares-Saldana R, Kim W, Bolar NA, Zhang H, Koch-Bojalad BA, Yoon S, Shah PP, Karnay A, Park DS, Luppino JM, Nguyen SC, Padmanabhan A, Smith CL, Poleshko A, Wang Q, Li L, Srivastava D, Vahedi G, Eom GH, Blobel GA, Joyce EF, Jain R.
Nat Genet. 2021 Oct;53(10):1480-1492
2021
BET bromodomain protein inhibition reverses chimeric antigen receptor extinction and reinvigorates exhausted T cells in chronic lymphocytic leukemia
Kong W, Dimitri A, Wang W, Jung IY, Ott CJ, Fasolino M, Wang Y, Kulikovskaya I, Gupta M, Yoder T, DeNizio JE, Everett JK, Williams EF, Xu J, Scholler J, Reich TJ, Bhoj VG, Haines KM, Maus MV, Melenhorst JJ, Young RM, Jadlowsky JK, Marcucci KT, Bradner JE, Levine BL, Porter DL, Bushman FD, Kohli RM, June CH, Davis MM, Lacey SF, Vahedi G, Fraietta JA.
J Clin Invest. 2021 Aug 16;131(16)
2021
Epigenetic scarring of exhausted T cells hinders memory differentiation upon eliminating chronic antigenic stimulation
Abdel-Hakeem, M., Manne, S., Beltra, J.C., Stelekati, E., Chen, C., Nzingha, K., Ali, M., Johnson, J.L., Giles, J., Mathew, D., Greenplate, A., Vahedi, G., and Wherry, E.J.
Nature Immunology
2021
Remodeling the chromatin landscape in T lymphocytes by a division of labor among transcription factors
Vahedi, G.
Immunological Reviews
2021
Exome-wide evaluation of rare coding variants
Park J, Lucas AM, Zhang X, Chaudhary K, Cho JH, Nadkarni G, Dobbyn A, Chittoor G, Josyula NS, Katz N, Breeyear JH, Ahmadmehrabi S, Drivas TG, Chavali VRM, Fasolino M, Sawada H, Daugherty A, Li Y, Zhang C, Bradford Y, Weaver J, Verma A, Judy RL, Kember RL, Overton JD, Reid JG, Ferreira MAR, Li AH, Baras A, LeMaire SA, Shen YH, Naji A, Kaestner KH, Vahedi G, Edwards TL, Chen J, Damrauer SM, Justice AE, Do R, Ritchie MD, Rader DJ.
Nature Medicine
2021
The Identity of Human Tissue-Emigrant CD8+ T Cells
Buggert, M., Vella,L.A., Nguyen, S., Wu, V., Sekine, T., Perez-Potti1, A., Maldini, C., Manne, S., Darko, S., Ransier, A., Kuri-Cervantes, L., Japp, A.S., Brody, I., Ivarsson, M., Hertwig, L., Antel, J.P., Johnson, M.E., Okoye, A, Picker, L., Vahedi, G., Sparrelid, E., Llewellyn-Lacey, S., Gostick, E, Björkström1, N., Bar-Or, A., Dori, Y., Naji, A., Canaday, D.H., Laufer, T.M, Wells, A., Price, D.A., Frank, I., Douek, D.C., Wherry, E.J, Itkin, M., Betts, M.R.
Cell
2020