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NMF Clustering: Accessible NMF-based Clustering Utilizing GPU Acceleration.
Liefeld T, Huang E, Wenzel AT, Yoshimoto K, Sharma AK, Sicklick JK, Mesirov JP, Reich M. Liefeld T, et al. Among authors: mesirov jp. J Bioinform Syst Biol. 2023;6(4):379-383. doi: 10.26502/jbsb.5107072. Epub 2023 Dec 21. J Bioinform Syst Biol. 2023. PMID: 38390437 Free PMC article.
NMFClustering: Accessible NMF-based clustering utilizing GPU acceleration.
Liefeld T, Huang E, Wenzel AT, Yoshimoto K, Sharma AK, Sicklick JK, Mesirov JP, Reich M. Liefeld T, et al. Among authors: mesirov jp. bioRxiv [Preprint]. 2023 Jun 27:2023.06.16.545370. doi: 10.1101/2023.06.16.545370. bioRxiv. 2023. PMID: 37398372 Free PMC article. Updated. Preprint.
Developmental basis of SHH medulloblastoma heterogeneity.
Gold MP, Ong W, Masteller AM, Ghasemi DR, Galindo JA, Park NR, Huynh NC, Donde A, Pister V, Saurez RA, Vladoiu MC, Hwang GH, Eisemann T, Donovan LK, Walker AD, Benetatos J, Dufour C, Garzia L, Segal RA, Wechsler-Reya RJ, Mesirov JP, Korshunov A, Pajtler KW, Pomeroy SL, Ayrault O, Davidson SM, Cotter JA, Taylor MD, Fraenkel E. Gold MP, et al. Among authors: mesirov jp. Nat Commun. 2024 Jan 8;15(1):270. doi: 10.1038/s41467-023-44300-0. Nat Commun. 2024. PMID: 38191555 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: mesirov jp. 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.
Circular extrachromosomal DNA promotes tumor heterogeneity in high-risk medulloblastoma.
Chapman OS, Luebeck J, Sridhar S, Wong IT, Dixit D, Wang S, Prasad G, Rajkumar U, Pagadala MS, Larson JD, He BJ, Hung KL, Lange JT, Dehkordi SR, Chandran S, Adam M, Morgan L, Wani S, Tiwari A, Guccione C, Lin Y, Dutta A, Lo YY, Juarez E, Robinson JT, Korshunov A, Michaels JA, Cho YJ, Malicki DM, Coufal NG, Levy ML, Hobbs C, Scheuermann RH, Crawford JR, Pomeroy SL, Rich JN, Zhang X, Chang HY, Dixon JR, Bagchi A, Deshpande AJ, Carter H, Fraenkel E, Mischel PS, Wechsler-Reya RJ, Bafna V, Mesirov JP, Chavez L. Chapman OS, et al. Among authors: mesirov jp. Nat Genet. 2023 Dec;55(12):2189-2199. doi: 10.1038/s41588-023-01551-3. Epub 2023 Nov 9. Nat Genet. 2023. PMID: 37945900 Free PMC article.
The GPCR-Gαs-PKA signaling axis promotes T cell dysfunction and cancer immunotherapy failure.
Wu VH, Yung BS, Faraji F, Saddawi-Konefka R, Wang Z, Wenzel AT, Song MJ, Pagadala MS, Clubb LM, Chiou J, Sinha S, Matic M, Raimondi F, Hoang TS, Berdeaux R, Vignali DAA, Iglesias-Bartolome R, Carter H, Ruppin E, Mesirov JP, Gutkind JS. Wu VH, et al. Among authors: mesirov jp. Nat Immunol. 2023 Aug;24(8):1318-1330. doi: 10.1038/s41590-023-01529-7. Epub 2023 Jun 12. Nat Immunol. 2023. PMID: 37308665 Free PMC article.
The Childhood Cancer Data Initiative: Using the Power of Data to Learn From and Improve Outcomes for Every Child and Young Adult With Pediatric Cancer.
Flores-Toro JA, Jagu S, Armstrong GT, Arons DF, Aune GJ, Chanock SJ, Hawkins DS, Heath A, Helman LJ, Janeway KA, Levine JE, Miller E, Penberthy L, Roberts CWM, Shalley ER, Shern JF, Smith MA, Staudt LM, Volchenboum SL, Zhang J, Zenklusen JC, Lowy DR, Sharpless NE, Guidry Auvil JM, Kerlavage AR, Widemann BC, Reaman GH, Kibbe WA, Doroshow JH; Childhood Cancer Data Initiative Working Groups. Flores-Toro JA, et al. J Clin Oncol. 2023 Aug 20;41(24):4045-4053. doi: 10.1200/JCO.22.02208. Epub 2023 Jun 2. J Clin Oncol. 2023. PMID: 37267580 Free PMC article.
134 results