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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: tamayo p. 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.
YAP-Driven Malignant Reprogramming of Epithelial Stem Cells at Single Cell Resolution.
Gutkind JS, Faraji F, Ramirez S, Clubb L, Sato K, Quiroz PA, Galloway W, Mikulski Z, Hoang T, Medetgul-Ernar K, Marangoni P, Jones K, Officer A, Molinolo A, Kim K, Sakaguchi K, Califano J, Smith Q, Klein O, Tamayo P. Gutkind JS, et al. Among authors: tamayo p. Res Sq [Preprint]. 2023 Oct 27:rs.3.rs-3426301. doi: 10.21203/rs.3.rs-3426301/v1. Res Sq. 2023. PMID: 37961717 Free PMC article. Preprint.
Gαs is dispensable for β-arrestin coupling but dictates GRK selectivity and is predominant for gene expression regulation by β2-adrenergic receptor.
Burghi V, Paradis JS, Officer A, Adame-Garcia SR, Wu X, Matthees ESF, Barsi-Rhyne B, Ramms DJ, Clubb L, Acosta M, Tamayo P, Bouvier M, Inoue A, von Zastrow M, Hoffmann C, Gutkind JS. Burghi V, et al. Among authors: tamayo p. J Biol Chem. 2023 Nov;299(11):105293. doi: 10.1016/j.jbc.2023.105293. Epub 2023 Sep 27. J Biol Chem. 2023. PMID: 37774973 Free PMC article.
Direct reprogramming of oral epithelial progenitor cells to cancer stem cells at single cell resolution in vivo.
Faraji F, Ramirez SI, Clubb LM, Sato K, Quiroz PYA, Galloway WMG, Mikulski Z, Hoang TS, Medetgul-Ernar K, Marangoni P, Jones KB, Officer A, Molinolo AA, Kim K, Sakaguchi K, Califano JA, Smith Q, Klein OD, Tamayo P, Gutkind JS. Faraji F, et al. Among authors: tamayo p. bioRxiv [Preprint]. 2023 Jul 26:2023.07.24.550427. doi: 10.1101/2023.07.24.550427. bioRxiv. 2023. PMID: 37546810 Free PMC article. Preprint.
[18F]DCFPyL PET/CT versus [18F]fluoromethylcholine PET/CT in Biochemical Recurrence of Prostate Cancer (PYTHON): a prospective, open label, cross-over, comparative study.
Oprea-Lager DE, Gontier E, García-Cañamaque L, Gauthé M, Olivier P, Mitjavila M, Tamayo P, Robin P, García Vicente AM, Bouyeure AC, Bailliez A, Rodríguez-Fernández A, Mahmoud SB, Vallejo-Casas JA, Maksud P, Merlin C, Blanc-Durand P, Drouet C, Tissot H, Vierasu I, Vander Borght T, Boos E, Chossat F, Hodolic M, Rousseau C. Oprea-Lager DE, et al. Among authors: tamayo p. Eur J Nucl Med Mol Imaging. 2023 Sep;50(11):3439-3451. doi: 10.1007/s00259-023-06301-5. Epub 2023 Jun 21. Eur J Nucl Med Mol Imaging. 2023. PMID: 37341747 Free PMC article. Clinical Trial.
169 results