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Do genome-scale models need exact solvers or clearer standards?
Ebrahim A, Almaas E, Bauer E, Bordbar A, Burgard AP, Chang RL, Dräger A, Famili I, Feist AM, Fleming RM, Fong SS, Hatzimanikatis V, Herrgård MJ, Holder A, Hucka M, Hyduke D, Jamshidi N, Lee SY, Le Novère N, Lerman JA, Lewis NE, Ma D, Mahadevan R, Maranas C, Nagarajan H, Navid A, Nielsen J, Nielsen LK, Nogales J, Noronha A, Pal C, Palsson BO, Papin JA, Patil KR, Price ND, Reed JL, Saunders M, Senger RS, Sonnenschein N, Sun Y, Thiele I. Ebrahim A, et al. Among authors: ma d. Mol Syst Biol. 2015 Oct 14;11(10):831. doi: 10.15252/msb.20156157. Mol Syst Biol. 2015. PMID: 26467284 Free PMC article. No abstract available.
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: ma d. Nat Protoc. 2019 Mar;14(3):639-702. doi: 10.1038/s41596-018-0098-2. Nat Protoc. 2019. PMID: 30787451 Free PMC article.
solveME: fast and reliable solution of nonlinear ME models.
Yang L, Ma D, Ebrahim A, Lloyd CJ, Saunders MA, Palsson BO. Yang L, et al. Among authors: ma d. BMC Bioinformatics. 2016 Sep 22;17(1):391. doi: 10.1186/s12859-016-1240-1. BMC Bioinformatics. 2016. PMID: 27659412 Free PMC article.
International Expert-Based Consensus Definition, Staging Criteria, and Minimum Data Elements for Osteoradionecrosis of the Jaw: An Inter-Disciplinary Modified Delphi Study.
International ORAL Consortium; Moreno AC, Watson EE, Humbert-Vidan L, Peterson DE, van Dijk LV, Urbano TG, Van den Bosch L, Hope AJ, Katz MS, Hoebers FJP, Aponte Wesson RA, Bates JE, Bossi P, Dayo AF, Doré M, Fregnani ER, Galloway TJ, Gelblum DY, Hanna IA, Henson CE, Kiat-Amnuay S, Korfage A, Lee NY, Lewis CM, Lynggaard CD, Mäkitie AA, Magalhaes M, Mowery YM, Muñoz-Montplet C, Myers JN, Orlandi E, Patel J, Rigert JM, Saunders D, Schoenfeld JD, Selek U, Somay E, Takiar V, Thariat J, Verduijn GM, Villa A, West N, Witjes MJH, Won A, Wong ME, Yao CMKL, Young SW, Al-Eryani K, Barbon CEA, Buurman DJM, Dieleman FJ, Hofstede TM, Khan AA, Otun AO, Robinson JC, Hum L, Johansen J, Lalla R, Lin A, Patel V, Shaw RJ, Chambers MS, Ma D, Singh M, Yarom N, Mohamed ASR, Hutcheson KA, Lai SY, Fuller CD. International ORAL Consortium, et al. Among authors: ma d. medRxiv [Preprint]. 2024 Apr 9:2024.04.07.24305400. doi: 10.1101/2024.04.07.24305400. medRxiv. 2024. PMID: 38645105 Free PMC article. Preprint.
9,021 results