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Items: 1 to 20 of 89

1.

Controlled annotations for systems biology.

Juty N, Laibe C, Le Novère N.

Methods Mol Biol. 2013;1021:227-45. doi: 10.1007/978-1-62703-450-0_12.

PMID:
23715988
2.

The CellML Metadata Framework 2.0 Specification.

Cooling MT, Hunter P.

J Integr Bioinform. 2015 Sep 4;12(2):260. doi: 10.2390/biecoll-jib-2015-260.

PMID:
26528558
3.

Identifiers.org and MIRIAM Registry: community resources to provide persistent identification.

Juty N, Le Novère N, Laibe C.

Nucleic Acids Res. 2012 Jan;40(Database issue):D580-6. doi: 10.1093/nar/gkr1097. Epub 2011 Dec 2.

4.

The CellML 1.1 Specification.

Cuellar A, Hedley W, Nelson M, Lloyd C, Halstead M, Bullivant D, Nickerson D, Hunter P, Nielsen P.

J Integr Bioinform. 2015 Sep 4;12(2):259. doi: 10.2390/biecoll-jib-2015-259.

PMID:
26528557
5.

A Converter from the Systems Biology Markup Language to the Synthetic Biology Open Language.

Nguyen T, Roehner N, Zundel Z, Myers CJ.

ACS Synth Biol. 2016 Jun 17;5(6):479-86. doi: 10.1021/acssynbio.5b00212. Epub 2016 Jan 12.

PMID:
26696234
6.

Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 2.

Bergmann FT, Cooper J, Le Novère N, Nickerson D, Waltemath D.

J Integr Bioinform. 2015 Sep 4;12(2):262. doi: 10.2390/biecoll-jib-2015-262.

PMID:
26528560
7.

Standards and ontologies in computational systems biology.

Sauro HM, Bergmann FT.

Essays Biochem. 2008;45:211-22. doi: 10.1042/BSE0450211. Review.

8.

The Systems Biology Markup Language (SBML) Level 3 Package: Qualitative Models, Version 1, Release 1.

Chaouiya C, Keating SM, Berenguier D, Naldi A, Thieffry D, van Iersel MP, Le Novère N, Helikar T.

J Integr Bioinform. 2015 Sep 4;12(2):270. doi: 10.2390/biecoll-jib-2015-270.

PMID:
26528568
9.

COMBINE Archive Specification Version 1.

Bergmann FT, Rodriguez N, Le Novère N.

J Integr Bioinform. 2015 Sep 4;12(2):261. doi: 10.2390/biecoll-jib-2015-261.

PMID:
26528559
10.

Systems Biology Graphical Notation: Entity Relationship language Level 1 Version 2.

Sorokin A, Le Novère N, Luna A, Czauderna T, Demir E, Haw R, Mi H, Moodie S, Schreiber F, Villéger A.

J Integr Bioinform. 2015 Sep 4;12(2):264. doi: 10.2390/biecoll-jib-2015-264.

PMID:
26528562
11.

Model storage, exchange and integration.

Le Novère N.

BMC Neurosci. 2006 Oct 30;7 Suppl 1:S11.

12.
13.

Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2.

Mi H, Schreiber F, Moodie S, Czauderna T, Demir E, Haw R, Luna A, Le Novère N, Sorokin A, Villéger A.

J Integr Bioinform. 2015 Sep 4;12(2):265. doi: 10.2390/biecoll-jib-2015-265.

PMID:
26528563
14.

The Systems Biology Markup Language (SBML) Level 3 Package: Layout, Version 1 Core.

Gauges R, Rost U, Sahle S, Wengler K, Bergmann FT.

J Integr Bioinform. 2015 Sep 4;12(2):267. doi: 10.2390/biecoll-jib-2015-267.

PMID:
26528565
15.

CellML2SBML: conversion of CellML into SBML.

Schilstra MJ, Li L, Matthews J, Finney A, Hucka M, Le Novère N.

Bioinformatics. 2006 Apr 15;22(8):1018-20. Epub 2006 Feb 10.

PMID:
16473867
16.

Systems Biology Graphical Notation: Process Description language Level 1 Version 1.3.

Moodie S, Le Novère N, Demir E, Mi H, Villéger A.

J Integr Bioinform. 2015 Sep 4;12(2):263. doi: 10.2390/biecoll-jib-2015-263.

PMID:
26528561
17.

Systems Biology Toolbox for MATLAB: a computational platform for research in systems biology.

Schmidt H, Jirstrand M.

Bioinformatics. 2006 Feb 15;22(4):514-5. Epub 2005 Nov 29.

PMID:
16317076
18.

Computational aspects of systematic biology.

Lilburn TG, Harrison SH, Cole JR, Garrity GM.

Brief Bioinform. 2006 Jun;7(2):186-95. Epub 2006 Apr 24. Review.

PMID:
16772262
19.

Capturing biological information with class-responsibility-collaboration cards.

Shegogue D, Zheng WJ.

Bioinformatics. 2005 Feb 1;21(3):415-7. Epub 2004 Sep 7.

PMID:
15353449
20.

GeneKeyDB: a lightweight, gene-centric, relational database to support data mining environments.

Kirov SA, Peng X, Baker E, Schmoyer D, Zhang B, Snoddy J.

BMC Bioinformatics. 2005 Mar 24;6:72.

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