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Results: 1 to 20 of 168

1.

Predicting cancer-specific vulnerability via data-driven detection of synthetic lethality.

Jerby-Arnon L, Pfetzer N, Waldman YY, McGarry L, James D, Shanks E, Seashore-Ludlow B, Weinstock A, Geiger T, Clemons PA, Gottlieb E, Ruppin E.

Cell. 2014 Aug 28;158(5):1199-209. doi: 10.1016/j.cell.2014.07.027.

PMID:
25171417
[PubMed - in process]
2.

Integrating transcriptomics with metabolic modeling predicts biomarkers and drug targets for Alzheimer's disease.

Stempler S, Yizhak K, Ruppin E.

PLoS One. 2014 Aug 15;9(8):e105383. doi: 10.1371/journal.pone.0105383. eCollection 2014.

PMID:
25127241
[PubMed - in process]
Free PMC Article
3.

Glycan degradation (GlyDeR) analysis predicts mammalian gut microbiota abundance and host diet-specific adaptations.

Eilam O, Zarecki R, Oberhardt M, Ursell LK, Kupiec M, Knight R, Gophna U, Ruppin E.

MBio. 2014 Aug 12;5(4). pii: e01526-14. doi: 10.1128/mBio.01526-14.

PMID:
25118239
[PubMed - in process]
Free PMC Article
4.

A computational study of the Warburg effect identifies metabolic targets inhibiting cancer migration.

Yizhak K, Le Dévédec SE, Rogkoti VM, Baenke F, de Boer VC, Frezza C, Schulze A, van de Water B, Ruppin E.

Mol Syst Biol. 2014 Aug 1;10:744. doi: 10.15252/msb.20134993.

PMID:
25086087
[PubMed - in process]
Free Article
5.

Network-level architecture and the evolutionary potential of underground metabolism.

Notebaart RA, Szappanos B, Kintses B, Pál F, Györkei Á, Bogos B, Lázár V, Spohn R, Csörgő B, Wagner A, Ruppin E, Pál C, Papp B.

Proc Natl Acad Sci U S A. 2014 Aug 12;111(32):11762-7. doi: 10.1073/pnas.1406102111. Epub 2014 Jul 28.

PMID:
25071190
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

A novel nutritional predictor links microbial fastidiousness with lowered ubiquity, growth rate, and cooperativeness.

Zarecki R, Oberhardt MA, Reshef L, Gophna U, Ruppin E.

PLoS Comput Biol. 2014 Jul 17;10(7):e1003726. doi: 10.1371/journal.pcbi.1003726. eCollection 2014 Jul.

PMID:
25033033
[PubMed - in process]
Free PMC Article
7.

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
8.

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]
Free PMC Article
9.

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
10.

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]
11.

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
12.

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
13.

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 PMC Article
14.

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 - indexed for MEDLINE]
Free PMC Article
15.

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]
16.

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]
17.

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
18.

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
19.

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
20.

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

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