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Immune and genomic correlates of response to anti-PD-1 immunotherapy in glioblastoma.
Zhao J, Chen AX, Gartrell RD, Silverman AM, Aparicio L, Chu T, Bordbar D, Shan D, Samanamud J, Mahajan A, Filip I, Orenbuch R, Goetz M, Yamaguchi JT, Cloney M, Horbinski C, Lukas RV, Raizer J, Rae AI, Yuan J, Canoll P, Bruce JN, Saenger YM, Sims P, Iwamoto FM, Sonabend AM, Rabadan R. Zhao J, et al. Among authors: orenbuch r. Nat Med. 2019 Mar;25(3):462-469. doi: 10.1038/s41591-019-0349-y. Epub 2019 Feb 11. Nat Med. 2019. PMID: 30742119 Free PMC article.
Author Correction: Immune and genomic correlates of response to anti-PD-1 immunotherapy in glioblastoma.
Zhao J, Chen AX, Gartrell RD, Silverman AM, Aparicio L, Chu T, Bordbar D, Shan D, Samanamud J, Mahajan A, Filip I, Orenbuch R, Goetz M, Yamaguchi JT, Cloney M, Horbinski C, Lukas RV, Raizer J, Rae AI, Yuan J, Canoll P, Bruce JN, Saenger YM, Sims P, Iwamoto FM, Sonabend AM, Rabadan R. Zhao J, et al. Among authors: orenbuch r. Nat Med. 2019 Jun;25(6):1022. doi: 10.1038/s41591-019-0449-8. Nat Med. 2019. PMID: 30996326
arcasHLA: high-resolution HLA typing from RNAseq.
Orenbuch R, Filip I, Comito D, Shaman J, Pe'er I, Rabadan R. Orenbuch R, et al. Bioinformatics. 2020 Jan 1;36(1):33-40. doi: 10.1093/bioinformatics/btz474. Bioinformatics. 2020. PMID: 31173059 Free PMC article.
Guidelines for releasing a variant effect predictor.
Livesey BJ, Badonyi M, Dias M, Frazer J, Kumar S, Lindorff-Larsen K, McCandlish DM, Orenbuch R, Shearer CA, Muffley L, Foreman J, Glazer AM, Lehner B, Marks DS, Roth FP, Rubin AF, Starita LM, Marsh JA. Livesey BJ, et al. Among authors: orenbuch r. ArXiv [Preprint]. 2024 Apr 16:arXiv:2404.10807v1. ArXiv. 2024. PMID: 38699161 Free PMC article. Preprint.
ProteinGym: Large-Scale Benchmarks for Protein Design and Fitness Prediction.
Notin P, Kollasch AW, Ritter D, van Niekerk L, Paul S, Spinner H, Rollins N, Shaw A, Weitzman R, Frazer J, Dias M, Franceschi D, Orenbuch R, Gal Y, Marks DS. Notin P, et al. Among authors: orenbuch r. bioRxiv [Preprint]. 2023 Dec 8:2023.12.07.570727. doi: 10.1101/2023.12.07.570727. bioRxiv. 2023. PMID: 38106144 Free PMC article. Preprint.
Pervasiveness of HLA allele-specific expression loss across tumor types.
Filip I, Wang A, Kravets O, Orenbuch R, Zhao J, Perea-Chamblee TE, Manji GA, López de Maturana E, Malats N, Olive KP, Rabadan R. Filip I, et al. Among authors: orenbuch r. Genome Med. 2023 Feb 9;15(1):8. doi: 10.1186/s13073-023-01154-x. Genome Med. 2023. PMID: 36759885 Free PMC article.