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Increased spatial coupling of integrin and collagen IV in the immunoresistant clear-cell renal-cell carcinoma tumor microenvironment.
Soupir AC, Hayes MT, Peak TC, Ospina O, Chakiryan NH, Berglund AE, Stewart PA, Nguyen J, Segura CM, Francis NL, Echevarria PMR, Chahoud J, Li R, Tsai KY, Balasi JA, Peres YC, Dhillon J, Martinez LA, Gloria WE, Schurman N, Kim S, Gregory M, Mulé J, Fridley BL, Manley BJ. Soupir AC, et al. Among authors: fridley bl. Genome Biol. 2024 Dec 5;25(1):308. doi: 10.1186/s13059-024-03435-z. Genome Biol. 2024. PMID: 39639369 Free PMC article.
BatchFLEX: feature-level equalization of X-batch.
Davis JT, Obermayer AN, Soupir AC, Hesterberg RS, Duong T, Yang CY, Dao KP, Manley BJ, Grass GD, Avram D, Rodriguez PC, Fridley BL, Yu X, Teng M, Wang X, Shaw TI. Davis JT, et al. Among authors: fridley bl. Bioinformatics. 2024 Oct 1;40(10):btae587. doi: 10.1093/bioinformatics/btae587. Bioinformatics. 2024. PMID: 39360977 Free PMC article.
Preexisting Skin-Resident CD8 and γδ T-cell Circuits Mediate Immune Response in Merkel Cell Carcinoma and Predict Immunotherapy Efficacy.
Reinstein ZZ, Zhang Y, Ospina OE, Nichols MD, Chu VA, Pulido AM, Prieto K, Nguyen JV, Yin R, Moran Segura C, Usman A, Sell B, Ng S, de la Iglesia JV, Chandra S, Sosman JA, Cho RJ, Cheng JB, Ivanova E, Koralov SB, Slebos RJC, Chung CH, Khushalani NI, Messina JL, Sarnaik AA, Zager JS, Sondak VK, Vaske C, Kim S, Brohl AS, Mi X, Pierce BG, Wang X, Fridley BL, Tsai KY, Choi J. Reinstein ZZ, et al. Among authors: fridley bl. Cancer Discov. 2024 Sep 4;14(9):1631-1652. doi: 10.1158/2159-8290.CD-23-0798. Cancer Discov. 2024. PMID: 39058036
spatialGE: A user-friendly web application to democratize spatial transcriptomics analysis.
Ospina OE, Manjarres-Betancur R, Gonzalez-Calderon G, Soupir AC, Smalley I, Tsai K, Markowitz J, Vallebuona E, Berglund A, Eschrich S, Yu X, Fridley BL. Ospina OE, et al. Among authors: fridley bl. bioRxiv [Preprint]. 2024 Jul 2:2024.06.27.601050. doi: 10.1101/2024.06.27.601050. bioRxiv. 2024. Update in: Cancer Res. 2024 Dec 5. doi: 10.1158/0008-5472.CAN-24-2346 PMID: 39005315 Free PMC article. Updated. Preprint.
Spectrum of somatic mutational features of colorectal tumors in ancestrally diverse populations.
Matejcic M, Teer JK, Hoehn HJ, Diaz DB, Shankar K, Gong J, Nguyen NT, Lorona N, Coppola D, Fulmer C, Saglam O, Jiang K, Cress D, Muñoz-Antonia T, Flores I, Gordian E, Oliveras Torres JA, Felder SI, Sanchez JA, Fleming J, Siegel EM, Freedman JA, Dutil J, Stern MC, Fridley BL, Figueiredo JC, Schmit SL. Matejcic M, et al. Among authors: fridley bl. medRxiv [Preprint]. 2024 Mar 15:2024.03.11.24303880. doi: 10.1101/2024.03.11.24303880. medRxiv. 2024. PMID: 38558992 Free PMC article. Preprint.
Lifetime Exposure to Cigarette Smoke, B-Cell Tumor Immune Infiltration, and Immunoglobulin Abundance in Ovarian Tumors.
Hathaway CA, Townsend MK, Wang T, Vinci C, Jake-Schoffman DE, Hecht JL, Saeed-Vafa D, Moran Segura C, Nguyen JV, Conejo-Garcia JR, Fridley BL, Tworoger SS. Hathaway CA, et al. Among authors: fridley bl. Cancer Epidemiol Biomarkers Prev. 2024 Jun 3;33(6):796-803. doi: 10.1158/1055-9965.EPI-23-1142. Cancer Epidemiol Biomarkers Prev. 2024. PMID: 38517322 Free PMC article.
300 results