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ProTECT-Prediction of T-Cell Epitopes for Cancer Therapy.
Rao AA, Madejska AA, Pfeil J, Paten B, Salama SR, Haussler D. Rao AA, et al. Front Immunol. 2020 Nov 10;11:483296. doi: 10.3389/fimmu.2020.483296. eCollection 2020. Front Immunol. 2020. PMID: 33244314 Free PMC article.
Molecular Profiling Reveals Biologically Discrete Subsets and Pathways of Progression in Diffuse Glioma.
Ceccarelli M, Barthel FP, Malta TM, Sabedot TS, Salama SR, Murray BA, Morozova O, Newton Y, Radenbaugh A, Pagnotta SM, Anjum S, Wang J, Manyam G, Zoppoli P, Ling S, Rao AA, Grifford M, Cherniack AD, Zhang H, Poisson L, Carlotti CG Jr, Tirapelli DP, Rao A, Mikkelsen T, Lau CC, Yung WK, Rabadan R, Huse J, Brat DJ, Lehman NL, Barnholtz-Sloan JS, Zheng S, Hess K, Rao G, Meyerson M, Beroukhim R, Cooper L, Akbani R, Wrensch M, Haussler D, Aldape KD, Laird PW, Gutmann DH; TCGA Research Network; Noushmehr H, Iavarone A, Verhaak RG. Ceccarelli M, et al. Among authors: rao aa, rao g, rao a. Cell. 2016 Jan 28;164(3):550-63. doi: 10.1016/j.cell.2015.12.028. Cell. 2016. PMID: 26824661 Free PMC article.
The UCSC SARS-CoV-2 Genome Browser.
Fernandes JD, Hinrichs AS, Clawson H, Gonzalez JN, Lee BT, Nassar LR, Raney BJ, Rosenbloom KR, Nerli S, Rao AA, Schmelter D, Fyfe A, Maulding N, Zweig AS, Lowe TM, Ares M Jr, Corbet-Detig R, Kent WJ, Haussler D, Haeussler M. Fernandes JD, et al. Among authors: rao aa. Nat Genet. 2020 Oct;52(10):991-998. doi: 10.1038/s41588-020-0700-8. Nat Genet. 2020. PMID: 32908258 Free PMC article.
Key Parameters of Tumor Epitope Immunogenicity Revealed Through a Consortium Approach Improve Neoantigen Prediction.
Wells DK, van Buuren MM, Dang KK, Hubbard-Lucey VM, Sheehan KCF, Campbell KM, Lamb A, Ward JP, Sidney J, Blazquez AB, Rech AJ, Zaretsky JM, Comin-Anduix B, Ng AHC, Chour W, Yu TV, Rizvi H, Chen JM, Manning P, Steiner GM, Doan XC; Tumor Neoantigen Selection Alliance; Merghoub T, Guinney J, Kolom A, Selinsky C, Ribas A, Hellmann MD, Hacohen N, Sette A, Heath JR, Bhardwaj N, Ramsdell F, Schreiber RD, Schumacher TN, Kvistborg P, Defranoux NA. Wells DK, et al. Cell. 2020 Oct 29;183(3):818-834.e13. doi: 10.1016/j.cell.2020.09.015. Epub 2020 Oct 9. Cell. 2020. PMID: 33038342 Free PMC article.
Complete Response to PD-1 Inhibition in an Adolescent With Relapsed Clear Cell Adenocarcinoma of the Cervix Predicted by Neoepitope Burden and APOBEC Signature.
Levinson A, Lee AG, Martell HJ, Breese MR, Zaloudek C, Van Ziffle J, Laguna B, Leung SG, Chen MD, Chen LM, Pfeil J, Ladwig NR, Shah AT, Behroozfard I, Rao AA, Salama SR, Sweet-Cordero EA, Stieglitz E. Levinson A, et al. Among authors: rao aa. JCO Precis Oncol. 2020 Nov 2;4:PO.20.00132. doi: 10.1200/PO.20.00132. eCollection 2020. JCO Precis Oncol. 2020. PMID: 33283136 Free PMC article. No abstract available.
Cyclone: an accessible pipeline to analyze, evaluate, and optimize multiparametric cytometry data.
Patel RK, Jaszczak RG, Im K, Carey ND, Courau T, Bunis DG, Samad B, Avanesyan L, Chew NW, Stenske S, Jespersen JM, Publicover J, Edwards AW, Naser M, Rao AA, Lupin-Jimenez L, Krummel MF, Cooper S, Baron JL, Combes AJ, Fragiadakis GK. Patel RK, et al. Among authors: rao aa. Front Immunol. 2023 Sep 4;14:1167241. doi: 10.3389/fimmu.2023.1167241. eCollection 2023. Front Immunol. 2023. PMID: 37731497 Free PMC article.
Bioinformatics Analysis of Publicly Available Single-Nuclei Transcriptomics Alzheimer's Disease Datasets Reveals APOE Genotype-Specific Changes Across Cell Types in Two Brain Regions.
Belonwu SA, Li Y, Bunis DG, Rao AA, Solsberg CW, Oskotsky T, Taubes AL, Grone B, Zalocusky KA, Fragiadakis GK, Huang Y, Sirota M. Belonwu SA, et al. Among authors: rao aa. Front Aging Neurosci. 2022 Apr 27;14:749991. doi: 10.3389/fnagi.2022.749991. eCollection 2022. Front Aging Neurosci. 2022. PMID: 35572130 Free PMC article.
Single-cell and spatial multi-omics highlight effects of anti-integrin therapy across cellular compartments in ulcerative colitis.
Mennillo E, Kim YJ, Lee G, Rusu I, Patel RK, Dorman LC, Flynn E, Li S, Bain JL, Andersen C, Rao A, Tamaki S, Tsui J, Shen A, Lotstein ML, Rahim M, Naser M, Bernard-Vazquez F, Eckalbar W, Cho SJ, Beck K, El-Nachef N, Lewin S, Selvig DR, Terdiman JP, Mahadevan U, Oh DY, Fragiadakis GK, Pisco A, Combes AJ, Kattah MG. Mennillo E, et al. Nat Commun. 2024 Feb 19;15(1):1493. doi: 10.1038/s41467-024-45665-6. Nat Commun. 2024. PMID: 38374043 Free PMC article.
Spatiotemporal co-dependency between macrophages and exhausted CD8+ T cells in cancer.
Kersten K, Hu KH, Combes AJ, Samad B, Harwin T, Ray A, Rao AA, Cai E, Marchuk K, Artichoker J, Courau T, Shi Q, Belk J, Satpathy AT, Krummel MF. Kersten K, et al. Among authors: rao aa. Cancer Cell. 2022 Jun 13;40(6):624-638.e9. doi: 10.1016/j.ccell.2022.05.004. Epub 2022 May 26. Cancer Cell. 2022. PMID: 35623342 Free PMC article.
101 results