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Items: 1 to 20 of 92

1.

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. 2013 May;31(5):419-25. doi: 10.1038/nbt.2488. Epub 2013 Mar 3.

2.

Recon 2.2: from reconstruction to model of human metabolism.

Swainston N, Smallbone K, Hefzi H, Dobson PD, Brewer J, Hanscho M, Zielinski DC, Ang KS, Gardiner NJ, Gutierrez JM, Kyriakopoulos S, Lakshmanan M, Li S, Liu JK, Martínez VS, Orellana CA, Quek LE, Thomas A, Zanghellini J, Borth N, Lee DY, Nielsen LK, Kell DB, Lewis NE, Mendes P.

Metabolomics. 2016;12:109. Epub 2016 Jun 7.

3.

Reconstruction of genome-scale human metabolic models using omics data.

Ryu JY, Kim HU, Lee SY.

Integr Biol (Camb). 2015 Aug;7(8):859-68. doi: 10.1039/c5ib00002e. Review.

PMID:
25730289
4.

Reconstruction of genome-scale active metabolic networks for 69 human cell types and 16 cancer types using INIT.

Agren R, Bordel S, Mardinoglu A, Pornputtapong N, Nookaew I, Nielsen J.

PLoS Comput Biol. 2012;8(5):e1002518. doi: 10.1371/journal.pcbi.1002518. Epub 2012 May 17.

5.

Membrane transporters in a human genome-scale metabolic knowledgebase and their implications for disease.

Sahoo S, Aurich MK, Jonsson JJ, Thiele I.

Front Physiol. 2014 Mar 11;5:91. doi: 10.3389/fphys.2014.00091. eCollection 2014. Review.

6.

Modeling challenges in the synthetic biology of secondary metabolism.

Breitling R, Achcar F, Takano E.

ACS Synth Biol. 2013 Jul 19;2(7):373-8. doi: 10.1021/sb4000228. Epub 2013 May 20. Review.

PMID:
23659212
7.

Reconstruction of Tissue-Specific Metabolic Networks Using CORDA.

Schultz A, Qutub AA.

PLoS Comput Biol. 2016 Mar 4;12(3):e1004808. doi: 10.1371/journal.pcbi.1004808. eCollection 2016 Mar.

8.

Knowledge-based generalization of metabolic networks: a practical study.

Zhukova A, Sherman DJ.

J Bioinform Comput Biol. 2014 Apr;12(2):1441001. doi: 10.1142/S0219720014410017. Epub 2014 Mar 6.

PMID:
24712528
9.

An analysis of a 'community-driven' reconstruction of the human metabolic network.

Swainston N, Mendes P, Kell DB.

Metabolomics. 2013 Aug;9(4):757-764. Epub 2013 Jul 12.

10.

Compartmentalization of the Edinburgh Human Metabolic Network.

Hao T, Ma HW, Zhao XM, Goryanin I.

BMC Bioinformatics. 2010 Jul 22;11:393. doi: 10.1186/1471-2105-11-393.

11.

Metabolomics and systems pharmacology: why and how to model the human metabolic network for drug discovery.

Kell DB, Goodacre R.

Drug Discov Today. 2014 Feb;19(2):171-82. doi: 10.1016/j.drudis.2013.07.014. Epub 2013 Jul 26. Review. Erratum in: Drug Discov Today. 2014 Nov;19(11):1828.

12.

MedicCyc: a biochemical pathway database for Medicago truncatula.

Urbanczyk-Wochniak E, Sumner LW.

Bioinformatics. 2007 Jun 1;23(11):1418-23. Epub 2007 Mar 7.

PMID:
17344243
13.

Dynamic model of CHO cell metabolism.

Nolan RP, Lee K.

Metab Eng. 2011 Jan;13(1):108-24. doi: 10.1016/j.ymben.2010.09.003. Epub 2010 Oct 7.

PMID:
20933095
14.

A kinetic model of Escherichia coli core metabolism satisfying multiple sets of mutant flux data.

Khodayari A, Zomorrodi AR, Liao JC, Maranas CD.

Metab Eng. 2014 Sep;25:50-62. doi: 10.1016/j.ymben.2014.05.014. Epub 2014 Jun 10.

PMID:
24928774
15.

A compendium of inborn errors of metabolism mapped onto the human metabolic network.

Sahoo S, Franzson L, Jonsson JJ, Thiele I.

Mol Biosyst. 2012 Oct;8(10):2545-58. doi: 10.1039/c2mb25075f.

PMID:
22699794
16.

The human metabolic reconstruction Recon 1 directs hypotheses of novel human metabolic functions.

Rolfsson O, Palsson BØ, Thiele I.

BMC Syst Biol. 2011 Oct 1;5:155. doi: 10.1186/1752-0509-5-155.

17.

Data integration and analysis of biological networks.

Kim TY, Kim HU, Lee SY.

Curr Opin Biotechnol. 2010 Feb;21(1):78-84. doi: 10.1016/j.copbio.2010.01.003. Epub 2010 Feb 6.

PMID:
20138751
18.

Using the reconstructed genome-scale human metabolic network to study physiology and pathology.

Bordbar A, Palsson BO.

J Intern Med. 2012 Feb;271(2):131-41. doi: 10.1111/j.1365-2796.2011.02494.x. Review.

19.
20.

HEMET: mathematical model of biochemical pathways for simulation and prediction of HEpatocyte METabolism.

De Maria C, Grassini D, Vozzi F, Vinci B, Landi A, Ahluwalia A, Vozzi G.

Comput Methods Programs Biomed. 2008 Oct;92(1):121-34. doi: 10.1016/j.cmpb.2008.06.004. Epub 2008 Jul 21.

PMID:
18640740

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