Ruppin, Eytan

Network-based prediction of human tissue-specific metabolism

Shlomi, T., Cabili, M. N., Herrgård, M. J., Palsson, B. Ø., & Ruppin, E. (2008) · Nature Biotechnology

Microbial Metabolic Engineering and BioproductionBioinformatics and Genomic Networks

Cited by 637

Translation efficiency is determined by both codon bias and folding energy

Tuller, T., Waldman, Y. Y., Kupiec, M., & Ruppin, E. (2010) · Proceedings of the National Academy of Sciences

RNA and protein synthesis mechanismsRNA Research and Splicing

Cited by 584

Glutamine synthetase activity fuels nucleotide biosynthesis and supports growth of glutamine-restricted glioblastoma

Tardito, S., Oudin, A., Ahmed, S. U., Fack, F., Keunen, O., Zheng, L., Miletic, H., Sakariassen, P. Ø., Weinstock, A., Wagner, A., et al. (2015) · Nature Cell Biology

Cancer, Hypoxia, and MetabolismAmino Acid Enzymes and Metabolism

Cited by 557

Haem oxygenase is synthetically lethal with the tumour suppressor fumarate hydratase

Frezza, C., Zheng, L., Folger, O., Rajagopalan, K. N., MacKenzie, E. D., Jerby, L., Micaroni, M., Chaneton, B., Adam, J., Hedley, A., et al. (2011) · Nature

Cancer, Hypoxia, and MetabolismHeme Oxygenase-1 and Carbon Monoxide

Cited by 503

Actor–critic models of the basal ganglia: new anatomical and computational perspectives

Joel, D., Niv, Y., & Ruppin, E. (2002) · Neural Networks

Neurotransmitter Receptor Influence on BehaviorNeural and Behavioral Psychology Studies

Cited by 500

Identification of bacteria-derived HLA-bound peptides in melanoma

Kalaora, S., Nagler, A., Nejman, D., Alon, M., Barbolin, C., Barnea, E., Ketelaars, S. L. C., Cheng, K., Vervier, K., Shental, N., et al. (2021) · Nature

Cancer Immunotherapy and BiomarkersImmunotherapy and Immune Responses

Cited by 457

Diversion of aspartate in ASS1-deficient tumours fosters de novo pyrimidine synthesis

Rabinovich, S., Adler, L., Yizhak, K., Sarver, A., Silberman, A., Agron, S., Stettner, N., Sun, Q., Brandis, A., Helbling, D., et al. (2015) · Nature

Biochemical and Molecular ResearchAmino Acid Enzymes and Metabolism

Cited by 382

Fumarate induces redox-dependent senescence by modifying glutathione metabolism

Zheng, L., Cardaci, S., Jerby, L., MacKenzie, E. D., Sciacovelli, M., Johnson, T. I., Gaude, E., King, A., Leach, J. D. G., Edrada-Ebel, R., et al. (2015) · Nature Communications

Cancer, Hypoxia, and MetabolismRedox biology and oxidative stress

Cited by 281

Big data in basic and translational cancer research

Jiang, P., Sinha, S., Aldape, K., Hannenhalli, S., Sahinalp, C., & Ruppin, E. (2022) · Nature Reviews Cancer

Cancer Genomics and DiagnosticsBioinformatics and Genomic Networks

Cited by 254

A genome‐scale computational study of the interplay between transcriptional regulation and metabolism

Shlomi, T., Eisenberg, Y., Sharan, R., & Ruppin, E. (2007) · Molecular Systems Biology

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 254

Integrating quantitative proteomics and metabolomics with a genome-scale metabolic network model

Yizhak, K., Benyamini, T., Liebermeister, W., Ruppin, E., & Shlomi, T. (2010) · Bioinformatics

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 253

Genome-Scale Metabolic Modeling Elucidates the Role of Proliferative Adaptation in Causing the Warburg Effect

Shlomi, T., Benyamini, T., Gottlieb, E., Sharan, R., & Ruppin, E. (2011) · PLoS Computational Biology

Cancer, Hypoxia, and MetabolismMicrobial Metabolic Engineering and Bioproduction

Cited by 244

A Platform of Synthetic Lethal Gene Interaction Networks Reveals that the GNAQ Uveal Melanoma Oncogene Controls the Hippo Pathway through FAK

Feng, X., Arang, N., Rigiracciolo, D. C., Lee, J. S., Yeerna, H., Wang, Z., Lubrano, S., Kishore, A., Pachter, J. A., König, G. M., et al. (2019) · Cancer Cell

Hippo pathway signaling and YAP/TAZOcular Oncology and Treatments

Cited by 237

Biomarkers for immunotherapy of hepatocellular carcinoma

Greten, T. F., Villanueva, A., Korangy, F., Ruf, B., Yarchoan, M., Ma, L., Ruppin, E., & Wang, X. W. (2023) · Nature Reviews Clinical Oncology

Cancer Immunotherapy and BiomarkersHepatocellular Carcinoma Treatment and Prognosis

Cited by 227

Gut microbiota dependent anti-tumor immunity restricts melanoma growth in Rnf5−/− mice

Li, Y., Tinoco, R., Elmén, L., Segota, I., Xian, Y., Fujita, Y., Sahu, A., Zarecki, R., Marie, K., Feng, Y., et al. (2019) · Nature Communications

Gut microbiota and healthCancer Immunotherapy and Biomarkers

Cited by 212

Elapsed time since BNT162b2 vaccine and risk of SARS-CoV-2 infection: test negative design study

Israel, A., Merzon, E., Schäffer, A. A., Shenhar, Y., Green, I., Golan-Cohen, A., Ruppin, E., Magen, E., & Vinker, S. (2021) · BMJ

SARS-CoV-2 and COVID-19 ResearchVaccine Coverage and Hesitancy

Cited by 170

Integrated proteotranscriptomics of breast cancer reveals globally increased protein-mRNA concordance associated with subtypes and survival

Tang, W., Zhou, M., Dorsey, T. H., Prieto, D. A., Wang, X. W., Ruppin, E., Veenstra, T. D., & Ambs, S. (2018) · Genome Medicine

Breast Cancer Treatment StudiesAdvanced Proteomics Techniques and Applications

Cited by 162

A deep-learning framework to predict cancer treatment response from histopathology images through imputed transcriptomics

Hoang, D.-T., Dinstag, G., Shulman, E. D., Hermida, L. C., Ben-Zvi, D. S., Elis, E., Caley, K., Sammut, S.-J., Sinha, S., Sinha, N., et al. (2024) · Nature Cancer

AI in cancer detectionRadiomics and Machine Learning in Medical Imaging

Cited by 157

Feature Selection via Coalitional Game Theory

Cohen, S., Dror, G., & Ruppin, E. (2007) · Neural Computation

Evolutionary Algorithms and ApplicationsMachine Learning and Data Classification

Cited by 144

Network-level architecture and the evolutionary potential of underground metabolism

Notebaart, R. A., Szappanos, B., Kintses, B., Pál, F., Györkei, Á., Bogos, B., Lázár, V., Spohn, R., Csörgő, B., Wagner, A., et al. (2014) · Proceedings of the National Academy of Sciences

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 123

Environmental stresses disrupt telomere length homeostasis

Romano, G. H., Harari, Y., Yehuda, T., Podhorzer, A., Rubinstein, L., Shamir, R., Gottlieb, A., Silberberg, Y., Pe'er, D., Ruppin, E., et al. (2013) · PLoS Genetics

Telomeres, Telomerase, and SenescenceGenetics, Aging, and Longevity in Model Organisms

Cited by 107

A joint analysis of transcriptomic and metabolomic data uncovers enhanced enzyme-metabolite coupling in breast cancer

Auslander, N., Yizhak, K., Weinstock, A., Budhu, A., Tang, W., Wang, X. W., Ambs, S., & Ruppin, E. (2016) · Scientific Reports

Cancer, Hypoxia, and MetabolismMetabolomics and Mass Spectrometry Studies

Cited by 50

Network-Free Inference of Knockout Effects in Yeast

Peleg, T., Yosef, N., Ruppin, E., & Sharan, R. (2010) · PLoS Computational Biology

Bioinformatics and Genomic NetworksGene Regulatory Network Analysis

Cited by 14