Amador-Noguez, Daniel, Xiao-Jiang Feng, Jing Fan, Nathaniel Roquet, Herschel Rabitz, and Joshua D Rabinowitz. (2010) 2010. “Systems-Level Metabolic Flux Profiling Elucidates a Complete, Bifurcated Tricarboxylic Acid Cycle in Clostridium Acetobutylicum.”. J Bacteriol 192 (17): 4452-61.

Reaves, Marshall Louis, Brian D Young, Aaron M Hosios, Yi-Fan Xu, and Joshua D Rabinowitz. (2013) 2013. “Pyrimidine Homeostasis Is Accomplished by Directed Overflow Metabolism.”. Nature 500 (7461): 237-41.

Kamphorst, Jurre J, Michel Nofal, Cosimo Commisso, Sean R Hackett, Wenyun Lu, Elda Grabocka, Matthew G Vander Heiden, et al. (2015) 2015. “Human Pancreatic Cancer Tumors Are Nutrient Poor and Tumor Cells Actively Scavenge Extracellular Protein.”. Cancer Res 75 (3): 544-53.

Vastag, Livia, Emre Koyuncu, Sarah L Grady, Thomas E Shenk, and Joshua D Rabinowitz. (2011) 2011. “Divergent Effects of Human Cytomegalovirus and Herpes Simplex Virus-1 on Cellular Metabolism.”. PLoS Pathog 7 (7): e1002124.

Zhang, Ji, Jing Fan, Sriram Venneti, Justin R Cross, Toshimitsu Takagi, Bhavneet Bhinder, Hakim Djaballah, et al. (2014) 2014. “Asparagine Plays a Critical Role in Regulating Cellular Adaptation to Glutamine Depletion.”. Mol Cell 56 (2): 205-18.

Park, Junyoung O, Sara A Rubin, Yi-Fan Xu, Daniel Amador-Noguez, Jing Fan, Tomer Shlomi, and Joshua D Rabinowitz. (2016) 2016. “Metabolite Concentrations, Fluxes and Free Energies Imply Efficient Enzyme Usage.”. Nat Chem Biol.

Lu, Wenyun, Lin Wang, Li Chen, Sheng Hui, and Joshua D Rabinowitz. (2017) 2017. “Extraction and Quantitation of Nicotinamide Adenine Dinucleotide Redox Cofactors.”. Antioxid Redox Signal. doi:10.1089/ars.2017.7014.

Morscher, Raphael J, Gregory S Ducker, Sophia Hsin-Jung Li, Johannes A Mayer, Zemer Gitai, Wolfgang Sperl, and Joshua D Rabinowitz. (2018) 2018. “Mitochondrial Translation Requires Folate-Dependent TRNA Methylation.”. Nature 554 (7690): 128-32. doi:10.1038/nature25460.

Poillet-Perez, Laura, Xiaoqi Xie, Le Zhan, Yang Yang, Daniel W Sharp, Zhixian Sherrie Hu, Xiaoyang Su, et al. (2018) 2018. “Autophagy Maintains Tumour Growth through Circulating Arginine.”. Nature 563 (7732): 569-73. doi:10.1038/s41586-018-0697-7.

Stine, Rachel R, Alexander P Sakers, Tara TeSlaa, Megan Kissig, Zachary E Stine, Chan Wook Kwon, Lan Cheng, et al. (2019) 2019. “PRDM16 Maintains Homeostasis of the Intestinal Epithelium by Controlling Region-Specific Metabolism.”. Cell Stem Cell. doi:10.1016/j.stem.2019.08.017.

Liu, Sean T H, Ronit Sharon-Friling, Pavlina Ivanova, Stephen B Milne, David S Myers, Joshua D Rabinowitz, Alex Brown, and Thomas Shenk. (2011) 2011. “Synaptic Vesicle-Like Lipidome of Human Cytomegalovirus Virions Reveals a Role for SNARE Machinery in Virion Egress.”. Proc Natl Acad Sci U S A 108 (31): 12869-74.

Xu, Yi-Fan, Fabien Létisse, Farnaz Absalan, Wenyun Lu, Ekaterina Kuznetsova, Greg Brown, Amy A Caudy, Alexander F Yakunin, James R Broach, and Joshua D Rabinowitz. 2013. “Nucleotide Degradation and Ribose Salvage in Yeast.”. Mol Syst Biol 9: 665.

Terry, Laura J, Livia Vastag, Joshua D Rabinowitz, and Thomas Shenk. (2012) 2012. “Human Kinome Profiling Identifies a Requirement for AMP-Activated Protein Kinase During Human Cytomegalovirus Infection.”. Proc Natl Acad Sci U S A 109 (8): 3071-6.

Rabinowitz, Joshua D, Jennifer J Hsiao, Kimberly R Gryncel, Evan R Kantrowitz, Xiao-Jiang Feng, Genyuan Li, and Herschel Rabitz. (2008) 2008. “Dissecting Enzyme Regulation by Multiple Allosteric Effectors: Nucleotide Regulation of Aspartate Transcarbamoylase.”. Biochemistry 47 (21): 5881-8.

Grady, Sarah L, John G Purdy, Joshua D Rabinowitz, and Thomas Shenk. (2013) 2013. “Argininosuccinate Synthetase 1 Depletion Produces a Metabolic State Conducive to Herpes Simplex Virus 1 Infection.”. Proc Natl Acad Sci U S A 110 (51).

Liu, Ling, Supriya Shah, Jing Fan, Junyoung O Park, Kathryn E Wellen, and Joshua D Rabinowitz. (2016) 2016. “Malic Enzyme Tracers Reveal Hypoxia-Induced Switch in Adipocyte NADPH Pathway Usage.”. Nat Chem Biol 12 (5): 345-52.

Choi, Joonhyuk, Abbhirami Rajagopal, Yi-Fan Xu, Joshua D Rabinowitz, and Erin K O’Shea. 2017. “A Systematic Genetic Screen for Genes Involved in Sensing Inorganic Phosphate Availability in Saccharomyces Cerevisiae.”. PLoS One 12 (5): e0176085. doi:10.1371/journal.pone.0176085.

Jang, Cholsoon, Sheng Hui, Wenyun Lu, Alexis J Cowan, Raphael J Morscher, Gina Lee, Wei Liu, Gregory J Tesz, Morris J Birnbaum, and Joshua D Rabinowitz. (2018) 2018. “The Small Intestine Converts Dietary Fructose into Glucose and Organic Acids.”. Cell Metab 27 (2): 351-361.e3. doi:10.1016/j.cmet.2017.12.016.

Neinast, Michael D, Cholsoon Jang, Sheng Hui, Danielle S Murashige, Qingwei Chu, Raphael J Morscher, Xiaoxuan Li, et al. (2019) 2019. “Quantitative Analysis of the Whole-Body Metabolic Fate of Branched-Chain Amino Acids.”. Cell Metab 29 (2): 417-429.e4. doi:10.1016/j.cmet.2018.10.013.

Jang, Cholsoon, Sheng Hui, Xianfeng Zeng, Alexis J Cowan, Lin Wang, Li Chen, Raphael J Morscher, et al. (2019) 2019. “Metabolite Exchange Between Mammalian Organs Quantified in Pigs.”. Cell Metab 30 (3): 594-606.e3. doi:10.1016/j.cmet.2019.06.002.

Petti, Allegra A, Christopher A Crutchfield, Joshua D Rabinowitz, and David Botstein. (2011) 2011. “Survival of Starving Yeast Is Correlated With Oxidative Stress Response and Nonrespiratory Mitochondrial Function.”. Proc Natl Acad Sci U S A 108 (45).

Yuan, Jie, Christopher D Doucette, William U Fowler, Xiao-Jiang Feng, Matthew Piazza, Herschel A Rabitz, Ned S Wingreen, and Joshua D Rabinowitz. 2009. “Metabolomics-Driven Quantitative Analysis of Ammonia Assimilation in E. Coli.”. Mol Syst Biol 5: 302.

Olszewski, Kellen L, Joanne M Morrisey, Daniel Wilinski, James M Burns, Akhil B Vaidya, Joshua D Rabinowitz, and Manuel Llinás. (2009) 2009. “Host-Parasite Interactions Revealed by Plasmodium Falciparum Metabolomics.”. Cell Host Microbe 5 (2): 191-9.

Yuan, Jie, and Joshua D Rabinowitz. (2007) 2007. “Differentiating Metabolites Formed from De Novo Synthesis Versus Macromolecule Decomposition.”. J Am Chem Soc 129 (30): 9294-5.

Kwon, Yun Kyung, Meytal B Higgins, and Joshua D Rabinowitz. (2010) 2010. “Antifolate-Induced Depletion of Intracellular Glycine and Purines Inhibits Thymineless Death in E. Coli.”. ACS Chem Biol 5 (8): 787-95.

Bren, Anat, Junyoung O Park, Benjamin D Towbin, Erez Dekel, Joshua D Rabinowitz, and Uri Alon. 2016. “Glucose Becomes One of the Worst Carbon Sources for E.Coli on Poor Nitrogen Sources Due to Suboptimal Levels of CAMP.”. Sci Rep 6: 24834.

Gong, Yingyun, Rui Cao, Guolian Ding, Sungguan Hong, Wenjun Zhou, Wenyun Lu, Manashree Damle, et al. (2017) 2017. “Integrated Omics Approaches to Characterize a Nuclear Receptor Corepressor-Associated Histone Deacetylase in Mouse Skeletal Muscle.”. Mol Cell Endocrinol. doi:10.1016/j.mce.2017.05.024.

McKee, Sarah E, Sisi Zhang, Li Chen, Joshua D Rabinowitz, and Teresa M Reyes. (2018) 2018. “Perinatal High Fat Diet and Early Life Methyl Donor Supplementation Alter One Carbon Metabolism and DNA Methylation in the Brain.”. J Neurochem 145 (5): 362-73. doi:10.1111/jnc.14319.

Minhas, Paras S, Ling Liu, Peter K Moon, Amit U Joshi, Christopher Dove, Siddhita Mhatre, Kevin Contrepois, et al. (2019) 2019. “Macrophage De Novo NAD Synthesis Specifies Immune Function in Aging and Inflammation.”. Nat Immunol 20 (1): 50-63. doi:10.1038/s41590-018-0255-3.

Benson, Kiara K, Wenxiang Hu, Angela H Weller, Alexis H Bennett, Eric R Chen, Sumeet A Khetarpal, Satoshi Yoshino, et al. (2019) 2019. “Natural Human Genetic Variation Determines Basal and Inducible Expression of , an Obesity-Associated Gene.”. Proc Natl Acad Sci U S A 116 (46): 23232-42. doi:10.1073/pnas.1913199116.

Ye, Jiangbin, Jing Fan, Sriram Venneti, Ying-Wooi Wan, Bruce R Pawel, Ji Zhang, Lydia W S Finley, et al. (2014) 2014. “Serine Catabolism Regulates Mitochondrial Redox Control During Hypoxia.”. Cancer Discov 4 (12): 1406-17.

Reaves, Marshall Louis, and Joshua D Rabinowitz. (2011) 2011. “Metabolomics in Systems Microbiology.”. Curr Opin Biotechnol 22 (1): 17-25.

Lu, Wenyun, Elizabeth Kimball, and Joshua D Rabinowitz. (2006) 2006. “A High-Performance Liquid Chromatography-Tandem Mass Spectrometry Method for Quantitation of Nitrogen-Containing Intracellular Metabolites.”. J Am Soc Mass Spectrom 17 (1): 37-50.

McAllister, Scott R, Xiao-Jiang Feng, Peter A DiMaggio, Christodoulos A Floudas, Joshua D Rabinowitz, and Herschel Rabitz. (2008) 2008. “Descriptor-Free Molecular Discovery in Large Libraries by Adaptive Substituent Reordering.”. Bioorg Med Chem Lett 18 (22): 5967-70.

Lu, Wenyun, Bryson D Bennett, and Joshua D Rabinowitz. (2008) 2008. “Analytical Strategies for LC-MS-Based Targeted Metabolomics.”. J Chromatogr B Analyt Technol Biomed Life Sci 871 (2): 236-42.

Jang, Cholsoon, Sungwhan F Oh, Shogo Wada, Glenn C Rowe, Laura Liu, Mun Chun Chan, James Rhee, et al. (2016) 2016. “A Branched-Chain Amino Acid Metabolite Drives Vascular Fatty Acid Transport and Causes Insulin Resistance.”. Nat Med 22 (4): 421-6.

Rajeshkumar, N, V, Shinichi Yabuuchi, Shweta G Pai, Elizabeth De Oliveira, Jurre J Kamphorst, Joshua D Rabinowitz, Héctor Tejero, et al. (2017) 2017. “Treatment of Pancreatic Cancer Patient-Derived Xenograft Panel With Metabolic Inhibitors Reveals Efficacy of Phenformin.”. Clin Cancer Res 23 (18): 5639-47. doi:10.1158/1078-0432.CCR-17-1115.

Gibney, Patrick A, Ariel Schieler, Jonathan C Chen, Jessie M Bacha-Hummel, Maxim Botstein, Matthew Volpe, Sanford J Silverman, et al. (2018) 2018. “Common and Divergent Features of Galactose-1-Phosphate and Fructose-1-Phosphate Toxicity in Yeast.”. Mol Biol Cell 29 (8): 897-910. doi:10.1091/mbc.E17-11-0666.

Ron-Harel, Noga, Giulia Notarangelo, Jonathan M Ghergurovich, Joao A Paulo, Peter T Sage, Daniel Santos, Kyle Satterstrom, et al. (2018) 2018. “Defective Respiration and One-Carbon Metabolism Contribute to Impaired naïve T Cell Activation in Aged Mice.”. Proc Natl Acad Sci U S A 115 (52): 13347-52. doi:10.1073/pnas.1804149115.

Dinh, Hoang, V, Patrick F Suthers, Siu Hung Joshua Chan, Yihui Shen, Tianxia Xiao, Anshu Deewan, Sujit S Jagtap, et al. (2019) 2019. “A Comprehensive Genome-Scale Model for IFO0880 Accounting for Functional Genomics and Phenotypic Data.”. Metab Eng Commun 9: e00101. doi:10.1016/j.mec.2019.e00101.

Bajad, Sunil U, Wenyun Lu, Elizabeth H Kimball, Jie Yuan, Celeste Peterson, and Joshua D Rabinowitz. (2006) 2006. “Separation and Quantitation of Water Soluble Cellular Metabolites by Hydrophilic Interaction Chromatography-Tandem Mass Spectrometry.”. J Chromatogr A 1125 (1): 76-88.

Lu, Wenyun, Michelle F Clasquin, Eugene Melamud, Daniel Amador-Noguez, Amy A Caudy, and Joshua D Rabinowitz. (2010) 2010. “Metabolomic Analysis via Reversed-Phase Ion-Pairing Liquid Chromatography Coupled to a Stand Alone Orbitrap Mass Spectrometer.”. Anal Chem 82 (8): 3212-21.

Aristilde, Ludmilla, Ian A Lewis, Junyoung O Park, and Joshua D Rabinowitz. (2014) 2014. “Hierarchy in Pentose Sugar Metabolism in Clostridium Acetobutylicum.”. Appl Environ Microbiol.

Bradley, Patrick H, Matthew J Brauer, Joshua D Rabinowitz, and Olga G Troyanskaya. (2009) 2009. “Coordinated Concentration Changes of Transcripts and Metabolites in Saccharomyces Cerevisiae.”. PLoS Comput Biol 5 (1): e1000270.

Hess, David C, Wenyun Lu, Joshua D Rabinowitz, and David Botstein. (2006) 2006. “Ammonium Toxicity and Potassium Limitation in Yeast.”. PLoS Biol 4 (11): e351.

Koivunen, Peppi, Stuart M Fell, Wenyun Lu, Joshua D Rabinowitz, Andrew L Kung, and Susanne Schlisio. 2016. “The 2-Oxoglutarate Analog 3-Oxoglutarate Decreases Normoxic Hypoxia-Inducible Factor-1α in Cancer Cells, Induces Cell Death, and Reduces Tumor Xenograft Growth.”. Hypoxia (Auckl) 4: 15-27. doi:10.2147/HP.S96366.

Lu, Wenyun, Xiaoyang Su, Matthias S Klein, Ian A Lewis, Oliver Fiehn, and Joshua D Rabinowitz. (2017) 2017. “Metabolite Measurement: Pitfalls to Avoid and Practices to Follow.”. Annu Rev Biochem 86: 277-304. doi:10.1146/annurev-biochem-061516-044952.

Lanaspa, Miguel A, Ana Andres-Hernando, David J Orlicky, Christina Cicerchi, Cholsoon Jang, Nanxing Li, Tamara Milagres, et al. (2018) 2018. “Ketohexokinase C Blockade Ameliorates Fructose-Induced Metabolic Dysfunction in Fructose-Sensitive Mice.”. J Clin Invest 128 (6): 2226-38. doi:10.1172/JCI94427.

Wang, Lin, Xi Xing, Li Chen, Lifeng Yang, Xiaoyang Su, Herschel Rabitz, Wenyun Lu, and Joshua D Rabinowitz. (2019) 2019. “Peak Annotation and Verification Engine for Untargeted LC-MS Metabolomics.”. Anal Chem 91 (3): 1838-46. doi:10.1021/acs.analchem.8b03132.

Gokhale, Samantha, Wenyun Lu, Sining Zhu, Yingying Liu, Ronald P Hart, Joshua D Rabinowitz, and Ping Xie. (2020) 2020. “Elevated Choline Kinase α-Mediated Choline Metabolism Supports the Prolonged Survival of TRAF3-Deficient B Lymphocytes.”. J Immunol 204 (2): 459-71. doi:10.4049/jimmunol.1900658.