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Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0.
Heirendt L, Arreckx S, Pfau T, Mendoza SN, Richelle A, Heinken A, Haraldsdóttir HS, Wachowiak J, Keating SM, Vlasov V, Magnusdóttir S, Ng CY, Preciat G, Žagare A, Chan SHJ, Aurich MK, Clancy CM, Modamio J, Sauls JT, Noronha A, Bordbar A, Cousins B, El Assal DC, Valcarcel LV, Apaolaza I, Ghaderi S, Ahookhosh M, Ben Guebila M, Kostromins A, Sompairac N, Le HM, Ma D, Sun Y, Wang L, Yurkovich JT, Oliveira MAP, Vuong PT, El Assal LP, Kuperstein I, Zinovyev A, Hinton HS, Bryant WA, Aragón Artacho FJ, Planes FJ, Stalidzans E, Maass A, Vempala S, Hucka M, Saunders MA, Maranas CD, Lewis NE, Sauter T, Palsson BØ, Thiele I, Fleming RMT. Heirendt L, et al. Among authors: planes fj. Nat Protoc. 2019 Mar;14(3):639-702. doi: 10.1038/s41596-018-0098-2. Nat Protoc. 2019. PMID: 30787451 Free PMC article.
COBRA methods and metabolic drug targets in cancer.
Apaolaza I, José-Eneriz ES, Agirre X, Prósper F, Planes FJ. Apaolaza I, et al. Among authors: planes fj. Mol Cell Oncol. 2017 Nov 30;5(1):e1389672. doi: 10.1080/23723556.2017.1389672. eCollection 2018. Mol Cell Oncol. 2017. PMID: 29404389 Free PMC article.
rMTA: robust metabolic transformation analysis.
Valcárcel LV, Torrano V, Tobalina L, Carracedo A, Planes FJ. Valcárcel LV, et al. Among authors: planes fj. Bioinformatics. 2019 Nov 1;35(21):4350-4355. doi: 10.1093/bioinformatics/btz231. Bioinformatics. 2019. PMID: 30923806
An extended reconstruction of human gut microbiota metabolism of dietary compounds.
Blasco T, Pérez-Burillo S, Balzerani F, Hinojosa-Nogueira D, Lerma-Aguilera A, Pastoriza S, Cendoya X, Rubio Á, Gosalbes MJ, Jiménez-Hernández N, Pilar Francino M, Apaolaza I, Rufián-Henares JÁ, Planes FJ. Blasco T, et al. Among authors: planes fj. Nat Commun. 2021 Aug 5;12(1):4728. doi: 10.1038/s41467-021-25056-x. Nat Commun. 2021. PMID: 34354065 Free PMC article.
52 results