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Transfer Learning Reveals Cancer-Associated Fibroblasts Are Associated with Epithelial-Mesenchymal Transition and Inflammation in Cancer Cells in Pancreatic Ductal Adenocarcinoma.
Guinn S, Kinny-Köster B, Tandurella JA, Mitchell JT, Sidiropoulos DN, Loth M, Lyman MR, Pucsek AB, Zabransky DJ, Lee JW, Kartalia E, Ramani M, Seppälä TT, Cherry C, Suri R, Zlomke H, Patel J, He J, Wolfgang CL, Yu J, Zheng L, Ryan DP, Ting DT, Kimmelman A, Gupta A, Danilova L, Elisseeff JH, Wood LD, Stein-O'Brien G, Kagohara LT, Jaffee EM, Burkhart RA, Fertig EJ, Zimmerman JW. Guinn S, et al. Among authors: gupta a. Cancer Res. 2024 May 2;84(9):1517-1533. doi: 10.1158/0008-5472.CAN-23-1660. Cancer Res. 2024. PMID: 38587552 Free PMC article.
Entinostat Decreases Immune Suppression to Promote Antitumor Responses in a HER2+ Breast Tumor Microenvironment.
Sidiropoulos DN, Rafie CI, Jang JK, Castanon S, Baugh AG, Gonzalez E, Christmas BJ, Narumi VH, Davis-Marcisak EF, Sharma G, Bigelow E, Vaghasia A, Gupta A, Skaist A, Considine M, Wheelan SJ, Ganesan SK, Yu M, Yegnasubramanian S, Stearns V, Connolly RM, Gaykalova DA, Kagohara LT, Jaffee EM, Fertig EJ, Roussos Torres ET. Sidiropoulos DN, et al. Among authors: gupta a. Cancer Immunol Res. 2022 May 3;10(5):656-669. doi: 10.1158/2326-6066.CIR-21-0170. Cancer Immunol Res. 2022. PMID: 35201318 Free PMC article.
Convergent alterations in the tumor microenvironment of MYC-driven human and murine prostate cancer.
Graham MK, Wang R, Chikarmane R, Abel B, Vaghasia A, Gupta A, Zheng Q, Hicks J, Sysa-Shah P, Pan X, Castagna N, Liu J, Meyers J, Skaist A, Zhang Y, Rubenstein M, Schuebel K, Simons BW, Bieberich CJ, Nelson WG, Lupold SE, DeWeese TL, De Marzo AM, Yegnasubramanian S. Graham MK, et al. Among authors: gupta a. Nat Commun. 2024 Aug 28;15(1):7414. doi: 10.1038/s41467-024-51450-2. Nat Commun. 2024. PMID: 39198404 Free PMC article.
Identifying Phased Mutations and Complex Rearrangements in Human Prostate Cancer Cell Lines through Linked-Read Whole-Genome Sequencing.
Pham MT, Gupta A, Gupta H, Vaghasia A, Skaist A, Garrison MA, Coulter JB, Haffner MC, Zheng SL, Xu J, DeStefano Shields C, Isaacs WB, Wheelan SJ, Nelson WG, Yegnasubramanian S. Pham MT, et al. Among authors: gupta a, gupta h. Mol Cancer Res. 2022 Jul 6;20(7):1013-1020. doi: 10.1158/1541-7786.MCR-21-0683. Mol Cancer Res. 2022. PMID: 35452513 Free PMC article.
Somatic mitochondrial mutation discovery using ultra-deep sequencing of the mitochondrial genome reveals spatial tumor heterogeneity in head and neck squamous cell carcinoma.
Schubert AD, Channah Broner E, Agrawal N, London N, Pearson A, Gupta A, Wali N, Seiwert TY, Wheelan S, Lingen M, Macleod K, Allen H, Chatterjee A, Vassiliki S, Gaykalova D, Hoque MO, Sidransky D, Suresh K, Izumchenko E. Schubert AD, et al. Among authors: gupta a. Cancer Lett. 2020 Feb 28;471:49-60. doi: 10.1016/j.canlet.2019.12.006. Epub 2019 Dec 10. Cancer Lett. 2020. PMID: 31830557 Free PMC article.
Single-cell atlas of epithelial and stromal cell heterogeneity by lobe and strain in the mouse prostate.
Graham MK, Chikarmane R, Wang R, Vaghasia A, Gupta A, Zheng Q, Wodu B, Pan X, Castagna N, Liu J, Meyers J, Skaist A, Wheelan S, Simons BW, Bieberich C, Nelson WG, DeWeese TL, De Marzo AM, Yegnasubramanian S. Graham MK, et al. Among authors: gupta a. Prostate. 2023 Feb;83(3):286-303. doi: 10.1002/pros.24460. Epub 2022 Nov 13. Prostate. 2023. PMID: 36373171
Dynamic single-cell RNA sequencing reveals BCG vaccination curtails SARS-CoV-2 induced disease severity and lung inflammation.
Singh AK, Wang R, Lombardo KA, Praharaj M, Bullen CK, Um P, Davis S, Komm O, Illei PB, Ordonez AA, Bahr M, Huang J, Gupta A, Psoter KJ, Jain SK, Bivalacqua TJ, Yegnasubramanian S, Bishai WR. Singh AK, et al. Among authors: gupta a. bioRxiv [Preprint]. 2022 Mar 15:2022.03.15.484018. doi: 10.1101/2022.03.15.484018. bioRxiv. 2022. PMID: 35313583 Free PMC article. Preprint.
Somatic mutations reveal hyperactive Notch signaling and racial disparities in prurigo nodularis.
Rajeh A, Cornman HL, Gupta A, Szeto MD, Kambala A, Oladipo O, Parthasarathy V, Deng J, Wheelan S, Pritchard T, Kwatra MM, Semenov YR, Gusev A, Yegnasubramanian S, Kwatra SG. Rajeh A, et al. Among authors: gupta a. medRxiv [Preprint]. 2023 Sep 26:2023.09.25.23295810. doi: 10.1101/2023.09.25.23295810. medRxiv. 2023. PMID: 37808834 Free PMC article. Preprint.
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