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decoupleR: ensemble of computational methods to infer biological activities from omics data.
Badia-I-Mompel P, Vélez Santiago J, Braunger J, Geiss C, Dimitrov D, Müller-Dott S, Taus P, Dugourd A, Holland CH, Ramirez Flores RO, Saez-Rodriguez J. Badia-I-Mompel P, et al. Among authors: ramirez flores ro. Bioinform Adv. 2022 Mar 8;2(1):vbac016. doi: 10.1093/bioadv/vbac016. eCollection 2022. Bioinform Adv. 2022. PMID: 36699385 Free PMC article.
Consensus Transcriptional Landscape of Human End-Stage Heart Failure.
Ramirez Flores RO, Lanzer JD, Holland CH, Leuschner F, Most P, Schultz JH, Levinson RT, Saez-Rodriguez J. Ramirez Flores RO, et al. J Am Heart Assoc. 2021 Apr 6;10(7):e019667. doi: 10.1161/JAHA.120.019667. Epub 2021 Mar 31. J Am Heart Assoc. 2021. PMID: 33787284 Free PMC article. Review.
Transcriptomic Cross-Species Analysis of Chronic Liver Disease Reveals Consistent Regulation Between Humans and Mice.
Holland CH, Ramirez Flores RO, Myllys M, Hassan R, Edlund K, Hofmann U, Marchan R, Cadenas C, Reinders J, Hoehme S, Seddek AL, Dooley S, Keitel V, Godoy P, Begher-Tibbe B, Trautwein C, Rupp C, Mueller S, Longerich T, Hengstler JG, Saez-Rodriguez J, Ghallab A. Holland CH, et al. Among authors: ramirez flores ro. Hepatol Commun. 2022 Jan;6(1):161-177. doi: 10.1002/hep4.1797. Epub 2021 Aug 28. Hepatol Commun. 2022. PMID: 34558834 Free PMC article.
The spatial transcriptomic landscape of the healing mouse intestine following damage.
Parigi SM, Larsson L, Das S, Ramirez Flores RO, Frede A, Tripathi KP, Diaz OE, Selin K, Morales RA, Luo X, Monasterio G, Engblom C, Gagliani N, Saez-Rodriguez J, Lundeberg J, Villablanca EJ. Parigi SM, et al. Among authors: ramirez flores ro. Nat Commun. 2022 Feb 11;13(1):828. doi: 10.1038/s41467-022-28497-0. Nat Commun. 2022. PMID: 35149721 Free PMC article.
Gene regulatory network inference in the era of single-cell multi-omics.
Badia-I-Mompel P, Wessels L, Müller-Dott S, Trimbour R, Ramirez Flores RO, Argelaguet R, Saez-Rodriguez J. Badia-I-Mompel P, et al. Among authors: ramirez flores ro. Nat Rev Genet. 2023 Nov;24(11):739-754. doi: 10.1038/s41576-023-00618-5. Epub 2023 Jun 26. Nat Rev Genet. 2023. PMID: 37365273 Review.
15 results