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Results: 1 to 20 of 162

1.

Maximal sum of metabolic exchange fluxes outperforms biomass yield as a predictor of growth rate of microorganisms.

Zarecki R, Oberhardt MA, Yizhak K, Wagner A, Shtifman Segal E, Freilich S, Henry CS, Gophna U, Ruppin E.

PLoS One. 2014 May 27;9(5):e98372. doi: 10.1371/journal.pone.0098372. eCollection 2014.

PMID:
24866123
[PubMed - in process]
Free PMC Article
2.

p53 promotes the expression of gluconeogenesis-related genes and enhances hepatic glucose production.

Goldstein I, Yizhak K, Madar S, Goldfinger N, Ruppin E, Rotter V.

Cancer Metab. 2013 Feb 4;1(1):9. doi: 10.1186/2049-3002-1-9.

PMID:
24280180
[PubMed]
3.

Computational evaluation of cellular metabolic costs successfully predicts genes whose expression is deleterious.

Wagner A, Zarecki R, Reshef L, Gochev C, Sorek R, Gophna U, Ruppin E.

Proc Natl Acad Sci U S A. 2013 Nov 19;110(47):19166-71. doi: 10.1073/pnas.1312361110. Epub 2013 Nov 6.

PMID:
24198337
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Model-based identification of drug targets that revert disrupted metabolism and its application to ageing.

Yizhak K, Gabay O, Cohen H, Ruppin E.

Nat Commun. 2013;4:2632. doi: 10.1038/ncomms3632.

PMID:
24153335
[PubMed - indexed for MEDLINE]
5.

A genome-wide systematic analysis reveals different and predictive proliferation expression signatures of cancerous vs. non-cancerous cells.

Waldman YY, Geiger T, Ruppin E.

PLoS Genet. 2013;9(9):e1003806. doi: 10.1371/journal.pgen.1003806. Epub 2013 Sep 19.

PMID:
24068970
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Environmental stresses disrupt telomere length homeostasis.

Romano GH, Harari Y, Yehuda T, Podhorzer A, Rubinstein L, Shamir R, Gottlieb A, Silberberg Y, Pe'er D, Ruppin E, Sharan R, Kupiec M.

PLoS Genet. 2013;9(9):e1003721. doi: 10.1371/journal.pgen.1003721. Epub 2013 Sep 5.

PMID:
24039592
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Taming the complexity of large models.

Oberhardt M, Ruppin E.

EMBO Rep. 2013 Oct;14(10):848. doi: 10.1038/embor.2013.145. Epub 2013 Sep 6. No abstract available.

PMID:
24008846
[PubMed - in process]
Free Article
8.

A method for inferring medical diagnoses from patient similarities.

Gottlieb A, Stein GY, Ruppin E, Altman RB, Sharan R.

BMC Med. 2013 Sep 2;11:194. doi: 10.1186/1741-7015-11-194.

PMID:
24004670
[PubMed - in process]
Free PMC Article
9.

Metabolically re-modeling the drug pipeline.

Oberhardt MA, Yizhak K, Ruppin E.

Curr Opin Pharmacol. 2013 Oct;13(5):778-85. doi: 10.1016/j.coph.2013.05.006. Epub 2013 May 31. Review.

PMID:
23731523
[PubMed - indexed for MEDLINE]
10.

Common and specific signatures of gene expression and protein-protein interactions in autoimmune diseases.

Tuller T, Atar S, Ruppin E, Gurevich M, Achiron A.

Genes Immun. 2013 Mar;14(2):67-82. doi: 10.1038/gene.2012.55. Epub 2012 Nov 29.

PMID:
23190644
[PubMed - indexed for MEDLINE]
11.

Predicting drug targets and biomarkers of cancer via genome-scale metabolic modeling.

Jerby L, Ruppin E.

Clin Cancer Res. 2012 Oct 15;18(20):5572-84. doi: 10.1158/1078-0432.CCR-12-1856. Review.

PMID:
23071359
[PubMed - indexed for MEDLINE]
Free Article
12.

Met kinetic signature derived from the response to HGF/SF in a cellular model predicts breast cancer patient survival.

Stein GY, Yosef N, Reichman H, Horev J, Laser-Azogui A, Berens A, Resau J, Ruppin E, Sharan R, Tsarfaty I.

PLoS One. 2012;7(9):e45969. doi: 10.1371/journal.pone.0045969. Epub 2012 Sep 25.

PMID:
23049908
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Analyzing gene expression from whole tissue vs. different cell types reveals the central role of neurons in predicting severity of Alzheimer's disease.

Stempler S, Ruppin E.

PLoS One. 2012;7(9):e45879. doi: 10.1371/journal.pone.0045879. Epub 2012 Sep 28. Erratum in: PLoS One. 2012;7(10). doi:10.1371/annotation/e5e824bf-e57f-4225-bfa0-cc32241a1ff0.

PMID:
23029292
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Enhancing the prioritization of disease-causing genes through tissue specific protein interaction networks.

Magger O, Waldman YY, Ruppin E, Sharan R.

PLoS Comput Biol. 2012;8(9):e1002690. doi: 10.1371/journal.pcbi.1002690. Epub 2012 Sep 27.

PMID:
23028288
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Metabolic associations of reduced proliferation and oxidative stress in advanced breast cancer.

Jerby L, Wolf L, Denkert C, Stein GY, Hilvo M, Oresic M, Geiger T, Ruppin E.

Cancer Res. 2012 Nov 15;72(22):5712-20. doi: 10.1158/0008-5472.CAN-12-2215. Epub 2012 Sep 17.

PMID:
22986741
[PubMed - indexed for MEDLINE]
Free Article
16.

Integrative genomic analysis identifies isoleucine and CodY as regulators of Listeria monocytogenes virulence.

Lobel L, Sigal N, Borovok I, Ruppin E, Herskovits AA.

PLoS Genet. 2012 Sep;8(9):e1002887. doi: 10.1371/journal.pgen.1002887. Epub 2012 Sep 6.

PMID:
22969433
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

INDI: a computational framework for inferring drug interactions and their associated recommendations.

Gottlieb A, Stein GY, Oron Y, Ruppin E, Sharan R.

Mol Syst Biol. 2012 Jul 17;8:592. doi: 10.1038/msb.2012.26.

PMID:
22806140
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Hippocampus neuronal metabolic gene expression outperforms whole tissue data in accurately predicting Alzheimer's disease progression.

Stempler S, Waldman YY, Wolf L, Ruppin E.

Neurobiol Aging. 2012 Sep;33(9):2230.e13-2230.e21. doi: 10.1016/j.neurobiolaging.2012.04.003. Epub 2012 May 4.

PMID:
22560482
[PubMed - indexed for MEDLINE]
19.

Systematic identification of gene annotation errors in the widely used yeast mutation collections.

Ben-Shitrit T, Yosef N, Shemesh K, Sharan R, Ruppin E, Kupiec M.

Nat Methods. 2012 Feb 5;9(4):373-8. doi: 10.1038/nmeth.1890.

PMID:
22306811
[PubMed - indexed for MEDLINE]
20.

A linearized constraint-based approach for modeling signaling networks.

Vardi L, Ruppin E, Sharan R.

J Comput Biol. 2012 Feb;19(2):232-40. doi: 10.1089/cmb.2011.0277.

PMID:
22300322
[PubMed - indexed for MEDLINE]

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