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Journal article · Preprint article

Do genome-scale models need exact solvers or clearer standards?

By Ebrahim, A.1; Almaas, E.12; Bauer, E.22; Bordbar, A.23; Burgard, A. P.24; Chang, R. L.25; Drager, A.1; Famili, I.26; Feist, A. M.1; Fleming, R. M.22; Fong, S. S.27; Hatzimanikatis, V.28; Herrgard, M. J.2; Holder, A.3; Hucka, M.4; Hyduke, D.5; Jamshidi, N.1; Lee, Sang Yup2,6; Le Novere, N.7; Lerman, J. A.1; Lewis, Nathan1; Ma, D.8; Mahadevan, R.9; Maranas, C.10; Nagarajan, H.24; Navid, A.11; Nielsen, Jens2,13; Nielsen, L. K.14; Nogales, J.15; Noronha, A.22; Pal, C.16; Palsson, Bernhard1; Papin, J. A.17; Patil, Kiran R.18; Price, N. D.19; Reed, J. L.20; Saunders, M.8; Senger, R. S.21; Sonnenschein, Nikolaus2; Sun, Yuekai8; Thiele, I.22 ...and 31 more

From

University of California at San Diego1

Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark2

Rose Hulman Institute Technology3

California Institute of Technology4

Utah State University5

New Bioactive Compounds, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark6

Babraham Institut7

Stanford University8

University of Toronto9

Pennsylvania State University10

Lawrence Livermore National Laboratory11

Norwegian University of Science and Technology12

Yeast Cell Factories, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark13

University of Queensland14

Centro de Investigaciones Biologicas15

Biological Research Center16

University of Virginia17

European Molecular Biology Laboratory18

Institute for Systems Biology19

University of Wisconsin-Madison20

Virginia Polytechnic Institute and State University21

University of Luxembourg22

Sinopia Biosciences23

Genomatica Inc.24

Massachusetts General Hospital/Harvard Medical School25

Intrexon, Inc.26

Virginia Commonwealth University27

University of Lausanne28

...and 18 more

Recent results obtained by Chindelevitch et al (2014) are challenged by Ebrahim et al, illustrating several issues in the reproducibility of computational biology methods.

Language: English
Publisher: John Wiley & Sons, Ltd
Year: 2015
Pages: 831
ISSN: 17444292
Types: Journal article and Preprint article
DOI: 10.15252/msb.20156157
ORCIDs: Herrgard, M. J. and Sonnenschein, Nikolaus
Keywords

Biology (General) Genome Medicine (General) Models, Biological QH301-705.5 R5-920 Thermodynamics

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