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Page 1
CD4 T cell-activating neoantigens enhance personalized cancer vaccine efficacy.
Huff AL, Longway G, Mitchell JT, Andaloori L, Davis-Marcisak E, Chen F, Lyman MR, Wang R, Mathew J, Barrett B, Rahman S, Leatherman J, Yarchoan M, Azad NS, Yegnasubramanian S, Kagohara LT, Fertig EJ, Jaffee EM, Armstrong TD, Zaidi N. Huff AL, et al. Among authors: davis marcisak e. JCI Insight. 2023 Dec 8;8(23):e174027. doi: 10.1172/jci.insight.174027. JCI Insight. 2023. PMID: 38063199 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: davis marcisak e. 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.
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: davis marcisak ef. 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.
Integrating single cell sequencing with a spatial quantitative systems pharmacology model spQSP for personalized prediction of triple-negative breast cancer immunotherapy response.
Zhang S, Gong C, Ruiz-Martinez A, Wang H, Davis-Marcisak E, Deshpande A, Popel AS, Fertig EJ. Zhang S, et al. Among authors: davis marcisak e. Immunoinformatics (Amst). 2021 Oct;1-2:100002. doi: 10.1016/j.immuno.2021.100002. Epub 2021 Jul 24. Immunoinformatics (Amst). 2021. PMID: 34708216 Free PMC article.
Author Correction: Community-wide hackathons to identify central themes in single-cell multi-omics.
Cao KL, Abadi AJ, Davis-Marcisak EF, Hsu L, Arora A, Coullomb A, Deshpande A, Feng Y, Jeganathan P, Loth M, Meng C, Mu W, Pancaldi V, Sankaran K, Righelli D, Singh A, Sodicoff JS, Stein-O'Brien GL, Subramanian A, Welch JD, You Y, Argelaguet R, Carey VJ, Dries R, Greene CS, Holmes S, Love MI, Ritchie ME, Yuan GC, Culhane AC, Fertig E. Cao KL, et al. Among authors: davis marcisak ef. Genome Biol. 2021 Aug 25;22(1):246. doi: 10.1186/s13059-021-02468-y. Genome Biol. 2021. PMID: 34433496 Free PMC article. No abstract available.
Community-wide hackathons to identify central themes in single-cell multi-omics.
Lê Cao KA, Abadi AJ, Davis-Marcisak EF, Hsu L, Arora A, Coullomb A, Deshpande A, Feng Y, Jeganathan P, Loth M, Meng C, Mu W, Pancaldi V, Sankaran K, Righelli D, Singh A, Sodicoff JS, Stein-O'Brien GL, Subramanian A, Welch JD, You Y, Argelaguet R, Carey VJ, Dries R, Greene CS, Holmes S, Love MI, Ritchie ME, Yuan GC, Culhane AC, Fertig E. Lê Cao KA, et al. Among authors: davis marcisak ef. Genome Biol. 2021 Aug 5;22(1):220. doi: 10.1186/s13059-021-02433-9. Genome Biol. 2021. PMID: 34353350 Free PMC article. No abstract available.
From bench to bedside: Single-cell analysis for cancer immunotherapy.
Davis-Marcisak EF, Deshpande A, Stein-O'Brien GL, Ho WJ, Laheru D, Jaffee EM, Fertig EJ, Kagohara LT. Davis-Marcisak EF, et al. Cancer Cell. 2021 Aug 9;39(8):1062-1080. doi: 10.1016/j.ccell.2021.07.004. Epub 2021 Jul 29. Cancer Cell. 2021. PMID: 34329587 Free PMC article. Review.
Evaluation of both exonic and intronic variants for effects on RNA splicing allows for accurate assessment of the effectiveness of precision therapies.
Joynt AT, Evans TA, Pellicore MJ, Davis-Marcisak EF, Aksit MA, Eastman AC, Patel SU, Paul KC, Osorio DL, Bowling AD, Cotton CU, Raraigh KS, West NE, Merlo CA, Cutting GR, Sharma N. Joynt AT, et al. Among authors: davis marcisak ef. PLoS Genet. 2020 Oct 21;16(10):e1009100. doi: 10.1371/journal.pgen.1009100. eCollection 2020 Oct. PLoS Genet. 2020. PMID: 33085659 Free PMC article.
Correction: Integrated single-cell and bulk gene expression and ATAC-seq reveals heterogeneity and early changes in pathways associated with resistance to cetuximab in HNSCC-sensitive cell lines.
Kagohara LT, Zamuner F, Davis-Marcisak EF, Sharma G, Considine M, Allen J, Yegnasubramanian S, Gaykalova DA, Fertig EJ. Kagohara LT, et al. Among authors: davis marcisak ef. Br J Cancer. 2020 Nov;123(10):1582-1583. doi: 10.1038/s41416-020-0998-0. Br J Cancer. 2020. PMID: 32694696 Free PMC article.
14 results