Sarah Keating

Sarah Keating

Senior Software Developer - Hermjakob team: Proteomics

ORCID iD: 0000-0002-3356-3542

Tel:+ 44 (0) 1223 494 403 / Fax:+ 44 (0) 1223 494 468

Publications

2013

Supporting SBML as a model exchange format in software applications.
Keating SM, Le Novère N.
Methods Mol Biol Volume 1021 (2013) p.201-225
DOI: 10.1007/978-1-62703-450-0_11

Path2Models: large-scale generation of computational models from biochemical pathway maps.
Büchel F, Rodriguez N, Swainston N, Wrzodek C, Czauderna T, Keller R, Mittag F, Schubert M, Glont M, Golebiewski M, van Iersel M, Keating S, Rall M, Wybrow M, Hermjakob H, Hucka M, Kell DB, Müller W, Mendes P, Zell A, Chaouiya C, Saez-Rodriguez J, Schreiber F, Laibe C, Dräger A, Le Novère N.
BMC Syst Biol Volume 7 (2013) p.116
DOI: 10.1186/1752-0509-7-116

A community-driven global reconstruction of human metabolism.
Thiele I, Swainston N, Fleming RM, Hoppe A, Sahoo S, Aurich MK, Haraldsdottir H, Mo ML, Rolfsson O, Stobbe MD, Thorleifsson SG, Agren R, Bölling C, Bordel S, Chavali AK, Dobson P, Dunn WB, Endler L, Hala D, Hucka M, Hull D, Jameson D, Jamshidi N, Jonsson JJ, Juty N, Keating S, Nookaew I, Le Novère N, Malys N, Mazein A, Papin JA, Price ND, Selkov E Sr, Sigurdsson MI, Simeonidis E, Sonnenschein N, Smallbone K, Sorokin A, van Beek JH, Weichart D, Goryanin I, Nielsen J, Westerhoff HV, Kell DB, Mendes P, Palsson BØ.
Nat Biotechnol Volume 31 (2013) p.419-425
DOI: 10.1038/nbt.2488

SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools.
Chaouiya C, Bérenguier D, Keating SM, Naldi A, van Iersel MP, Rodriguez N, Dräger A, Büchel F, Cokelaer T, Kowal B, Wicks B, Gonçalves E, Dorier J, Page M, Monteiro PT, von Kamp A, Xenarios I, de Jong H, Hucka M, Klamt S, Thieffry D, Le Novère N, Saez-Rodriguez J, Helikar T.
BMC Syst Biol Volume 7 (2013) p.135
DOI: 10.1186/1752-0509-7-135

2011

Controlled vocabularies and semantics in systems biology.
Courtot M, Juty N, Knüpfer C, Waltemath D, Zhukova A, Dräger A, Dumontier M, Finney A, Golebiewski M, Hastings J, Hoops S, Keating S, Kell DB, Kerrien S, Lawson J, Lister A, Lu J, Machne R, Mendes P, Pocock M, Rodriguez N, Villeger A, Wilkinson DJ, Wimalaratne S, Laibe C, Hucka M, Le Novère N.
Mol Syst Biol Volume 7 (2011) p.543
DOI: 10.1038/msb.2011.77

2008

LibSBML: an API library for SBML.
Bornstein BJ, Keating SM, Jouraku A, Hucka M.
Bioinformatics Volume 24 (2008) p.880-881
DOI: 10.1093/bioinformatics/btn051

Methods for simulating the dynamics of complex biological processes.
Schilstra MJ, Martin SR, Keating SM.
Methods Cell Biol Volume 84 (2008) p.807-842
DOI: 10.1016/s0091-679x(07)84025-8

2006

SBMLToolbox: an SBML toolbox for MATLAB users.
Keating SM, Bornstein BJ, Finney A, Hucka M.
Bioinformatics Volume 22 (2006) p.1275-1277
DOI: 10.1093/bioinformatics/btl111

2004

Evolving a lingua franca and associated software infrastructure for computational systems biology: the Systems Biology Markup Language (SBML) project.
Hucka M, Finney A, Bornstein BJ, Keating SM, Shapiro BE, Matthews J, Kovitz BL, Schilstra MJ, Funahashi A, Doyle JC, Kitano H.
Syst Biol (Stevenage) Volume 1 (2004) p.41-53
DOI: 10.1049/sb:20045008

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