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Items: 13

1.

Personalized Whole-Cell Kinetic Models of Metabolism for Discovery in Genomics and Pharmacodynamics.

Bordbar A, McCloskey D, Zielinski DC, Sonnenschein N, Jamshidi N, Palsson BO.

Cell Syst. 2015 Oct 28;1(4):283-292. doi: 10.1016/j.cels.2015.10.003. Epub 2015 Oct 28.

PMID:
27136057
2.

Editorial: Current Challenges in Modeling Cellular Metabolism.

Machado D, Zhuang KH, Sonnenschein N, Herrgård MJ.

Front Bioeng Biotechnol. 2015 Nov 26;3:193. doi: 10.3389/fbioe.2015.00193. eCollection 2015. No abstract available.

3.

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.

Mol Syst Biol. 2015 Oct 14;11(10):831. doi: 10.15252/msb.20156157. No abstract available.

4.

Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visualizations of Biological Pathways.

King ZA, Dräger A, Ebrahim A, Sonnenschein N, Lewis NE, Palsson BO.

PLoS Comput Biol. 2015 Aug 27;11(8):e1004321. doi: 10.1371/journal.pcbi.1004321. eCollection 2015 Aug.

5.

Analysis of genetic variation and potential applications in genome-scale metabolic modeling.

Cardoso JG, Andersen MR, Herrgård MJ, Sonnenschein N.

Front Bioeng Biotechnol. 2015 Feb 16;3:13. doi: 10.3389/fbioe.2015.00013. eCollection 2015. Review.

PMID:
25763369
Free PMC Article
6.

Evolution reveals a glutathione-dependent mechanism of 3-hydroxypropionic acid tolerance.

Kildegaard KR, Hallström BM, Blicher TH, Sonnenschein N, Jensen NB, Sherstyk S, Harrison SJ, Maury J, Herrgård MJ, Juncker AS, Forster J, Nielsen J, Borodina I.

Metab Eng. 2014 Nov;26:57-66. doi: 10.1016/j.ymben.2014.09.004. Epub 2014 Sep 28.

7.

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.

8.

Artefacts in statistical analyses of network motifs: general framework and application to metabolic networks.

Beber ME, Fretter C, Jain S, Sonnenschein N, Müller-Hannemann M, Hütt MT.

J R Soc Interface. 2012 Dec 7;9(77):3426-35. doi: 10.1098/rsif.2012.0490. Epub 2012 Aug 15.

9.

A network perspective on metabolic inconsistency.

Sonnenschein N, Golib Dzib JF, Lesne A, Eilebrecht S, Boulkroun S, Zennaro MC, Benecke A, Hütt MT.

BMC Syst Biol. 2012 May 14;6:41. doi: 10.1186/1752-0509-6-41.

10.

A topological characterization of medium-dependent essential metabolic reactions.

Sonnenschein N, Marr C, Hütt MT.

Metabolites. 2012 Sep 24;2(3):632-47. doi: 10.3390/metabo2030632.

11.

Analog regulation of metabolic demand.

Sonnenschein N, Geertz M, Muskhelishvili G, Hütt MT.

BMC Syst Biol. 2011 Mar 15;5:40. doi: 10.1186/1752-0509-5-40.

12.

Ranges of control in the transcriptional regulation of Escherichia coli.

Sonnenschein N, Hütt MT, Stoyan H, Stoyan D.

BMC Syst Biol. 2009 Dec 24;3:119. doi: 10.1186/1752-0509-3-119.

13.

The phosphatase activities of the microsomal (submicroscopic particulate) fraction prepared in an electrolyte medium.

SONNENSCHEIN N, KOPAC MJ.

J Cell Physiol. 1955 Jun;45(3):361-75. No abstract available.

PMID:
13263357
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