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Activation of the NOTCH pathway in head and neck cancer.
Sun W, Gaykalova DA, Ochs MF, Mambo E, Arnaoutakis D, Liu Y, Loyo M, Agrawal N, Howard J, Li R, Ahn S, Fertig E, Sidransky D, Houghton J, Buddavarapu K, Sanford T, Choudhary A, Darden W, Adai A, Latham G, Bishop J, Sharma R, Westra WH, Hennessey P, Chung CH, Califano JA. Sun W, et al. Among authors: fertig e. Cancer Res. 2014 Feb 15;74(4):1091-104. doi: 10.1158/0008-5472.CAN-13-1259. Epub 2013 Dec 18. Cancer Res. 2014. PMID: 24351288 Free PMC article.
Inferring cellular and molecular processes in single-cell data with non-negative matrix factorization using Python, R and GenePattern Notebook implementations of CoGAPS.
Johnson JAI, Tsang AP, Mitchell JT, Zhou DL, Bowden J, Davis-Marcisak E, Sherman T, Liefeld T, Loth M, Goff LA, Zimmerman JW, Kinny-Köster B, Jaffee EM, Tamayo P, Mesirov JP, Reich M, Fertig EJ, Stein-O'Brien GL. Johnson JAI, et al. Among authors: fertig ej. Nat Protoc. 2023 Dec;18(12):3690-3731. doi: 10.1038/s41596-023-00892-x. Epub 2023 Nov 21. Nat Protoc. 2023. PMID: 37989764 Free PMC article. Review.
Age-associated Senescent - T Cell Signaling Promotes Type 3 Immunity that Inhibits the Biomaterial Regenerative Response.
Han J, Cherry C, Mejías JC, Krishnan K, Ruta A, Maestas DR Jr, Peña AN, Nguyen HH, Nagaraj S, Yang B, Gray-Gaillard EF, Rutkowski N, Browne M, Tam AJ, Fertig EJ, Housseau F, Ganguly S, Moore EM, Pardoll DM, Elisseeff JH. Han J, et al. Adv Mater. 2024 Oct;36(43):e2310476. doi: 10.1002/adma.202310476. Epub 2023 Dec 28. Adv Mater. 2024. PMID: 38087458
Systems immunology spanning tumors, lymph nodes, and periphery.
Sidiropoulos DN, Ho WJ, Jaffee EM, Kagohara LT, Fertig EJ. Sidiropoulos DN, et al. Cell Rep Methods. 2023 Dec 18;3(12):100670. doi: 10.1016/j.crmeth.2023.100670. Epub 2023 Dec 11. Cell Rep Methods. 2023. PMID: 38086385 Free PMC article. Review.
Digitize your Biology! Modeling multicellular systems through interpretable cell behavior.
Johnson JAI, Stein-O'Brien GL, Booth M, Heiland R, Kurtoglu F, Bergman DR, Bucher E, Deshpande A, Forjaz A, Getz M, Godet I, Lyman M, Metzcar J, Mitchell J, Raddatz A, Rocha H, Solorzano J, Sundus A, Wang Y, Gilkes D, Kagohara LT, Kiemen AL, Thompson ED, Wirtz D, Wu PH, Zaidi N, Zheng L, Zimmerman JW, Jaffee EM, Hwan Chang Y, Coussens LM, Gray JW, Heiser LM, Fertig EJ, Macklin P. Johnson JAI, et al. Among authors: fertig ej. bioRxiv [Preprint]. 2023 Nov 5:2023.09.17.557982. doi: 10.1101/2023.09.17.557982. bioRxiv. 2023. PMID: 37745323 Free PMC article. Preprint.
Transfer learning in a biomaterial fibrosis model identifies in vivo senescence heterogeneity and contributions to vascularization and matrix production across species and diverse pathologies.
Cherry C, Andorko JI, Krishnan K, Mejías JC, Nguyen HH, Stivers KB, Gray-Gaillard EF, Ruta A, Han J, Hamada N, Hamada M, Sturmlechner I, Trewartha S, Michel JH, Davenport Huyer L, Wolf MT, Tam AJ, Peña AN, Keerthivasan S, Le Saux CJ, Fertig EJ, Baker DJ, Housseau F, van Deursen JM, Pardoll DM, Elisseeff JH. Cherry C, et al. Geroscience. 2023 Aug;45(4):2559-2587. doi: 10.1007/s11357-023-00785-7. Epub 2023 Apr 20. Geroscience. 2023. PMID: 37079217 Free PMC article.
187 results