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Author Details

Tomer Shlomi
Technion-Israel Institute of Technology
2005
66
38
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
37980339Inferring mitochondrial and cytosolic metabolism by coupling isotope tracing and deconvolution.Nat Commun2023
35064215Genomic alterations drive metastases formation in pancreatic ductal adenocarcinoma cancer: deciphering the role of CDKN2A and CDKN2B in mediating liver tropism.Oncogene2022
35508111Glycine decarboxylase maintains mitochondrial protein lipoylation to support tumor growth.Cell Metab2022
33326752Tumor Reliance on Cytosolic versus Mitochondrial One-Carbon Flux Depends on Folate Availability.Cell Metab2021
33958489Increasing mTORC1 Pathway Activity or Methionine Supplementation during Pregnancy Reverses the Negative Effect of Maternal Malnutrition on the Developing Kidney.J Am Soc Nephrol2021
32581242Fast and sensitive flow-injection mass spectrometry metabolomics by analyzing sample-specific ion distributions.Nat Commun2020
33046912Mind your media.Nat Metab2020
30903027Spatial-fluxomics provides a subcellular-compartmentalized view of reductive glutamine metabolism in cancer cells.Nat Commun2019
30074825Sensitivity of pituitary gonadotropes to hyperglycemia leads to epigenetic aberrations and reduced follicle-stimulating hormone levels.FASEB J2019
31272436Studying metabolic flux adaptations in cancer through integrated experimental-computational approaches.BMC Biol2019
31039782Inferring cancer dependencies on metabolic genes from large-scale genetic screens.BMC Biol2019
30728179Systemic Succinate Homeostasis and Local Succinate Signaling Affect Blood Pressure and Modify Risks for Calcium Oxalate Lithogenesis.J Am Soc Nephrol2019
31056286Intra-Tumoral Metabolic Zonation and Resultant Phenotypic Diversification Are Dictated by Blood Vessel Proximity.Cell Metab2019
31138796Blimp1<sup>+</sup> cells generate functional mouse sebaceous gland organoids in vitro.Nat Commun2019
30250104A new ESI-LC/MS approach for comprehensive metabolic profiling of phytocannabinoids in Cannabis.Sci Rep2018
30042153Transfer of miRNA in Macrophage-Derived Exosomes Induces Drug Resistance in Pancreatic Adenocarcinoma.Cancer Res2018
29109155Temporal fluxomics reveals oscillations in TCA cycle flux throughout the mammalian cell cycle.Mol Syst Biol2017
27021152Targeted Inhibition of Glutamine-Dependent Glutathione Metabolism Overcomes Death Resistance Induced by Chronic Cycling Hypoxia.Antioxid Redox Signal2016
27159581Metabolite concentrations, fluxes and free energies imply efficient enzyme usage.Nat Chem Biol2016
26951675Global characterization of in vivo enzyme catalytic rates and their correspondence to in vitro kcat measurements.Proc Natl Acad Sci U S A2016
26230524Efficient Modeling of MS/MS Data for Metabolic Flux Analysis.PLoS One2015
26366734Correction: Efficient Modeling of MS/MS Data for Metabolic Flux Analysis.PLoS One2015
24397525Quantitation of cellular metabolic fluxes of methionine.Anal Chem2014
24805240Quantitative flux analysis reveals folate-dependent NADPH production.Nature2014
24568598High throughput synthetic lethality screen reveals a tumorigenic role of adenylate cyclase in fumarate hydratase-deficient cancer cells.BMC Genomics2014
23594782Metabolism: Cancer mistunes methylation.Nat Chem Biol2013
24301801Glutamine-driven oxidative phosphorylation is a major ATP source in transformed mammalian cells in both normoxia and hypoxia.Mol Syst Biol2013
24123514An integrated computational approach for metabolic flux analysis coupled with inference of tandem-MS collisional fragments.Bioinformatics2013
24086517Steady-state metabolite concentrations reflect a balance between maximizing enzyme efficiency and minimizing total metabolite load.PLoS One2013
24030823Fatty acid labeling from glutamine in hypoxia can be explained by isotope exchange without net reductive isocitrate dehydrogenase (IDH) flux.J Biol Chem2013
23685455A key role for mitochondrial gatekeeper pyruvate dehydrogenase in oncogene-induced senescence.Nature2013
22184215Reconstruction of Arabidopsis metabolic network models accounting for subcellular compartmentalization and tissue-specificity.Proc Natl Acad Sci U S A2012
23194418MIRAGE: a functional genomics-based approach for metabolic network model reconstruction and its application to cyanobacteria networks.Genome Biol2012
22792053Prediction of microbial growth rate versus biomass yield by a metabolic network with kinetic parameters.PLoS Comput Biol2012
21423717Genome-scale metabolic modeling elucidates the role of proliferative adaptation in causing the Warburg effect.PLoS Comput Biol2011
21849978Haem oxygenase is synthetically lethal with the tumour suppressor fumarate hydratase.Nature2011
21694718Predicting selective drug targets in cancer through metabolic networks.Mol Syst Biol2011
21385050Pathway-based functional analysis of metagenomes.J Comput Biol2011
21283695Computational design of auxotrophy-dependent microbial biosensors for combinatorial metabolic engineering experiments.PLoS One2011
20031969Predicting metabolic engineering knockout strategies for chemical production: accounting for competing pathways.Bioinformatics2010
21415885Metabolic network-based interpretation of gene expression data elucidates human cellular metabolism.Biotechnol Genet Eng Rev2010
21081510iMAT: an integrative metabolic analysis tool.Bioinformatics2010
20823844Computational reconstruction of tissue-specific metabolic models: application to human liver metabolism.Mol Syst Biol2010
20529914Integrating quantitative proteomics and metabolomics with a genome-scale metabolic network model.Bioinformatics2010
20398381Flux balance analysis accounting for metabolite dilution.Genome Biol2010
20097653Translation efficiency in humans: tissue specificity, global optimization and differences between developmental stages.Nucleic Acids Res2010
20090828Associating genes and protein complexes with disease via network propagation.PLoS Comput Biol2010
19477995Network-based prediction of metabolic enzymes' subcellular localization.Bioinformatics2009
19593469A network-based method for predicting gene-nutrient interactions and its application to yeast amino-acid metabolism.Mol Biosyst2009
19401675Predicting metabolic biomarkers of human inborn errors of metabolism.Mol Syst Biol2009
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Collaborators

Eytan Ruppin
National Cancer Institute
Co-authored papers 27
Roded Sharan
Tel Aviv University
Co-authored papers 14
Joshua D Rabinowitz
Lewis Sigler Institute for Integrative Genomics, Princeton University
Co-authored papers 7
Trey Ideker (CM4AI)
University of California San Diego
Co-authored papers 3
Moran N Cabili
Foundation Medicine Inc.
Co-authored papers 2
Bernhard O Palsson
University of California San Diego
Co-authored papers 2
Ron Shamir
Tel Aviv University
Co-authored papers 1
Banu Dost
university of california san diego
Co-authored papers 1
Hoda Feizi
Co-authored papers 1
Silpa Suthram
Stanford Center for Biomedical Informatics Research, Stanford University
Co-authored papers 1
Keren Yizhak
Co-authored papers 1
Vineet Bafna
University of California San Diego
Co-authored papers 1
Oved Ourfali
Tel-Aviv University
Co-authored papers 1
Igor Ulitsky
Weizmann Institute of Science
Co-authored papers 1
Yi-Fan Xu
Nanjing Hydraulic Research Institute
Co-authored papers 1
Yonina C Eldar
Weizmann institute of Science
Co-authored papers 1
Daniel S Peeper
Netherlands Cancer Institute
Co-authored papers 1
Kai Tan
University of Pennsylvania
Co-authored papers 1
Release 1.2