Publications

1198 Publications

2017

1.
Wooldridge AL, Bischof RJ, Liu H, Heinemann GK, Hunter DS, Giles LC, Simmons RA, Lien Y-C, Lu W, Rabinowitz JD, Kind KL, Owens JA, Clifton VL, Gatford KL. Late gestation maternal dietary methyl donor and cofactor supplementation in sheep partially reverses protection against allergic sensitization by IUGR. Am J Physiol Regul Integr Comp Physiol. 2017;:ajpregu.00549.2016. PMID: 28978515
1.
Shi C, Runnels AM, Murphy CT. Mating and male pheromone kill Caenorhabditis males through distinct mechanisms. Elife. 2017;6. PMCID: PMC5378475
1.
Klibaite U, Berman GJ, Cande JD, Stern DL, Shaevitz JW. An unsupervised method for quantifying the behavior of paired animals. Phys Biol. 2017;14(1):015006. PMCID: PMC5414632
1.
Hong S, Zhou W, Fang B, Lu W, Loro E, Damle M, Ding G, Jager J, Zhang S, Zhang Y, Feng D, Chu Q, Dill BD, Molina H, Khurana TS, Rabinowitz JD, Lazar MA, Sun Z. Dissociation of muscle insulin sensitivity from exercise endurance in mice by HDAC3 depletion. Nat Med. 2017;23(2):223–234. PMCID: PMC5540654
1.
Hui S, Ghergurovich JM, Morscher RJ, Jang C, Teng X, Lu W, Esparza LA, Reya T, Guo JY, White E, Rabinowitz JD. Glucose feeds the TCA cycle via circulating lactate. Nature. 2017;551(7678):115–118. PMID: 29045397
1.
Nguyen JP, Linder AN, Plummer GS, Shaevitz JW, Leifer AM. Automatically tracking neurons in a moving and deforming brain. PLoS Comput Biol. 2017;13(5):e1005517. PMCID: PMC5436637
1.
Davidson SM, Jonas O, Keibler MA, Hou HW, Luengo A, Mayers JR, Wyckoff J, Del Rosario AM, Whitman M, Chin CR, Condon KJ, Lammers A, Kellersberger KA, Stall BK, Stephanopoulos G, Bar-Sagi D, Han J, Rabinowitz JD, Cima MJ, Langer R, Heiden MGV. Direct evidence for cancer-cell-autonomous extracellular protein catabolism in pancreatic tumors. Nat Med. 2017;23(2):235–241. PMCID: PMC5407288
1.
Ducker GS, Ghergurovich JM, Mainolfi N, Suri V, Jeong SK, Li SH-J, Friedman A, Manfredi MG, Gitai Z, Kim H, Rabinowitz JD. Human SHMT inhibitors reveal defective glycine import as a targetable metabolic vulnerability of diffuse large B-cell lymphoma. Proc Natl Acad Sci U S A. 2017;114(43):11404–11409. PMCID: PMC5664509
1.
Sabass B, Koch MD, Liu G, Stone HA, Shaevitz JW. Force generation by groups of migrating bacteria. Proc Natl Acad Sci U S A. 2017;114(28):7266–7271. PMCID: PMC5514709
1.
Su X, Lu W, Rabinowitz JD. Metabolite Spectral Accuracy on Orbitraps. Anal Chem. 2017;89(11):5940–5948. PMID: 28471646
1.
Perez A, Pritykin Y, Vidigal J, Chhangawala S, Zamparo L, Leslie C, Ventura A. GuideScan software for improved single and paired CRISPR guide RNA design. Nature biotechnology. 2017;35(4):347–349. PMCID: PMC5607865
1.
Wittwer B, Hefetz A, Simon T, Murphy L, Elgar M, Pierce N, Kocher S. Solitary bees reduce investment in communication compared with their social relatives. Proceedings of the National Academy of Sciences of the United States of America. 2017;114(25):6569–6574. PMCID: PMC5488929

2016

1.
Guo JY, Teng X, Laddha S V, Ma S, Van Nostrand SC, Yang Y, Khor S, Chan CS, Rabinowitz JD, White E. Autophagy provides metabolic substrates to maintain energy charge and nucleotide pools in Ras-driven lung cancer cells. Genes Dev. 2016;30(15):1704–17. PMCID: PMC5002976
1.
Rabinowitz JD, Coller HA. Partners in the Warburg effect. Elife. 2016;5.
1.
Galbraith DA, Kocher SD, Glenn T, Albert I, Hunt GJ, Strassmann JE, Queller DC, Grozinger CM. Testing the kinship theory of intragenomic conflict in honey bees (Apis mellifera). Proc Natl Acad Sci U S A. 2016;113(4):1020–5. PMCID: PMC4743802
1.
Moloughney JG, Kim PK, Vega-Cotto NM, Wu C-C, Zhang S, Adlam M, Lynch T, Chou P-C, Rabinowitz JD, Werlen G, Jacinto E. mTORC2 Responds to Glutamine Catabolite Levels to Modulate the Hexosamine Biosynthesis Enzyme GFAT1. Mol Cell. 2016;63(5):811–26. PMCID: PMC5006067
1.
Engel P, Kwong WK, McFrederick Q, Anderson KE, Barribeau SM, Chandler JA, Cornman S, Dainat J, de Miranda JR, Doublet V, Emery O, Evans JD, Farinelli L, Flenniken ML, Granberg F, Grasis JA, Gauthier L, Hayer J, Koch H, Kocher S, Martinson VG, Moran N, Munoz-Torres M, Newton I, Paxton RJ, Powell E, Sadd BM, Schmid-Hempel P, Schmid-Hempel R, Song SJ, Schwarz RS, vanEngelsdorp D, Dainat B. The Bee Microbiome: Impact on Bee Health and Model for Evolution and Ecology of Host-Microbe Interactions. MBio. 2016;7(2):e02164–15. PMCID: PMC4850275
1.
Hackett SR, Zanotelli VRT, Xu W, Goya J, Park JO, Perlman DH, Gibney PA, Botstein D, Storey JD, Rabinowitz JD. Systems-level analysis of mechanisms regulating yeast metabolic flux. Science. 2016;354(6311). PMID: 27789812
1.
Zong W-X, Rabinowitz JD, White E. Mitochondria and Cancer. Mol Cell. 2016;61(5):667–76.
1.
Møller HD, Bojsen RK, Tachibana C, Parsons L, Botstein D, Regenberg B. Genome-wide Purification of Extrachromosomal Circular DNA from Eukaryotic Cells. J Vis Exp. 2016;(110):e54239 |. PMID: 27077531
1.
Watson E, Olin-Sandoval V, Hoy MJ, Li C-H, Louisse T, Yao V, Mori A, Holdorf AD, Troyanskaya OG, Ralser M, Walhout AJ. Metabolic network rewiring of propionate flux compensates vitamin B12 deficiency in C. elegans. Elife. 2016;5. PMCID: PMC4951191
1.
Park JO, Rubin SA, Xu Y-F, Amador-Noguez D, Fan J, Shlomi T, Rabinowitz JD. Metabolite concentrations, fluxes and free energies imply efficient enzyme usage. Nat Chem Biol. 2016;.
1.
Farley EK, Olson KM, Zhang W, Rokhsar DS, Levine MS. Syntax compensates for poor binding sites to encode tissue specificity of developmental enhancers. Proc Natl Acad Sci U S A. 2016;113(23):6508–13. PMCID: PMC4988596
1.
Costanzo M, VanderSluis B, Koch EN, Baryshnikova A, Pons C, Tan G, Wang W, Usaj M, Hanchard J, Lee SD, Pelechano V, Styles EB, Billmann M, van Leeuwen J, van Dyk N, Lin Z-Y, Kuzmin E, Nelson J, Piotrowski JS, Srikumar T, Bahr S, Chen Y, Deshpande R, Kurat CF, Li SC, Li Z, Usaj MM, Okada H, Pascoe N, San Luis B-J, Sharifpoor S, Shuteriqi E, Simpkins SW, Snider J, Suresh HG, Tan Y, Zhu H, Malod-Dognin N, Janjic V, Przulj N, Troyanskaya OG, Stagljar I, Xia T, Ohya Y, Gingras A-C, Raught B, Boutros M, Steinmetz LM, Moore CL, Rosebrock AP, Caudy AA, Myers CL, Andrews BJ, Boone C. A global genetic interaction network maps a wiring diagram of cellular function. Science. 2016;353(6306). PMCID: PMC5661885
1.
Kaletsky R, Lakhina V, Arey R, Williams A, Landis J, Ashraf JM, Murphy CT. The C. elegans adult neuronal IIS/FOXO transcriptome reveals adult phenotype regulators. Nature. 2016;529(7584):92–6. PMCID: PMC4708089
1.
Liu L, Shah S, Fan J, Park JO, Wellen KE, Rabinowitz JD. Malic enzyme tracers reveal hypoxia-induced switch in adipocyte NADPH pathway usage. Nat Chem Biol. 2016;12(5):345–52.
1.
Esposito E, Lim B, Guessous G, Falahati H, Levine M. Mitosis-associated repression in development. Genes Dev. 2016;30(13):1503–8. PMCID: PMC4949323
1.
Krishnan A, Zhang R, Yao V, Theesfeld CL, Wong AK, Tadych A, Volfovsky N, Packer A, Lash A, Troyanskaya OG. Genome-wide prediction and functional characterization of the genetic basis of autism spectrum disorder. Nat Neurosci. 2016;19(11):1454–1462. PMID: 27479844
1.
Nguyen JP, Shipley FB, Linder AN, Plummer GS, Liu M, Setru SU, Shaevitz JW, Leifer AM. Whole-brain calcium imaging with cellular resolution in freely behaving Caenorhabditis elegans. Proc Natl Acad Sci U S A. 2016;113(8):E1074–81. PMCID: PMC4776509
1.
Fukaya T, Lim B, Levine M. Enhancer Control of Transcriptional Bursting. Cell. 2016;166(2):358–68. PMCID: PMC4970759
1.
Bren A, Park JO, Towbin BD, Dekel E, Rabinowitz JD, Alon U. Glucose becomes one of the worst carbon sources for E.coli on poor nitrogen sources due to suboptimal levels of cAMP. Sci Rep. 2016;6:24834.
1.
Wang Q, Taliaferro M, Klibaite U, Hilgers V, Shaevitz JW, Rio DC. The PSI-U1 snRNP interaction regulates male mating behavior in Drosophila. Proc Natl Acad Sci U S A. 2016;113(19):5269–74. PMCID: PMC4868454
1.
Navarrete IA, Levine M. Nodal and FGF coordinate ascidian neural tube morphogenesis. Development. 2016;143(24):4665–4675. PMCID: PMC5201037
1.
Li L-B, Lei H, Arey R, Li P, Liu J, Murphy CT, Xu XZS, Shen K. The Neuronal Kinesin UNC-104/KIF1A Is a Key Regulator of Synaptic Aging and Insulin Signaling-Regulated Memory. Curr Biol. 2016;26(5):605–15. PMCID: PMC4783184
1.
Roberts AM, Wong AK, Fisk I, Troyanskaya OG. GIANT API: an application programming interface for functional genomics. Nucleic Acids Res. 2016;.
1.
Nguyen JP, Bratton BP, Shaevitz JW. Biophysical Measurements of Bacterial Cell Shape. Methods Mol Biol. 2016;1440:227–45. PMID: 27311676
1.
Su X, Wellen KE, Rabinowitz JD. Metabolic control of methylation and acetylation. Curr Opin Chem Biol. 2016;30:52–60.
1.
Shi C, Murphy CT. Feeding the germline. Genes Dev. 2016;30(3):249–50. PMCID: PMC4743054
1.
Ouzounov N, Nguyen JP, Bratton BP, Jacobowitz D, Gitai Z, Shaevitz JW. MreB Orientation Correlates with Cell Diameter in Escherichia coli. Biophys J. 2016;111(5):1035–43. PMCID: PMC5018124
1.
Nuttle X, Giannuzzi G, Duyzend MH, Schraiber JG, Narvaiza I, Sudmant PH, Penn O, Chiatante G, Malig M, Huddleston J, Benner C, Camponeschi F, Ciofi-Baffoni S, Stessman HAF, Marchetto MCN, Denman L, Harshman L, Baker C, Raja A, Penewit K, Janke N, Tang J, Ventura M, Banci L, Antonacci F, Akey J, Amemiya CT, Gage FH, Reymond A, Eichler EE. Emergence of a Homo sapiens-specific gene family and chromosome 16p11.2 CNV susceptibility. Nature. 2016;536(7615):205–9. PMCID: PMC4988886
1.
Jang C, Oh SF, Wada S, Rowe GC, Liu L, Chan MC, Rhee J, Hoshino A, Kim B, Ibrahim A, Baca LG, Kim E, Ghosh CC, Parikh SM, Jiang A, Chu Q, Forman DE, Lecker SH, Krishnaiah S, Rabinowitz JD, Weljie AM, Baur JA, Kasper DL, Arany Z. A branched-chain amino acid metabolite drives vascular fatty acid transport and causes insulin resistance. Nat Med. 2016;22(4):421–6.
1.
Berman GJ, Bialek W, Shaevitz JW. Predictability and hierarchy in Drosophila behavior. Proc Natl Acad Sci U S A. 2016;113(42):11943–11948. PMCID: PMC5081631
1.
Koivunen P, Fell SM, Lu W, Rabinowitz JD, Kung AL, Schlisio S. 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). 2016;4:15–27. PMCID: PMC4981084
1.
Titchenell PM, Quinn WJ, Lu M, Chu Q, Lu W, Li C, Chen H, Monks BR, Chen J, Rabinowitz JD, Birnbaum MJ. Direct Hepatocyte Insulin Signaling Is Required for Lipogenesis but Is Dispensable for the Suppression of Glucose Production. Cell Metab. 2016;.
1.
Teng X, Emmett MJ, Lazar MA, Goldberg E, Rabinowitz JD. Lactate Dehydrogenase C Produces S-2-Hydroxyglutarate in Mouse Testis. ACS Chem Biol. 2016;. PMID: 27333189
1.
Papazyan R, Sun Z, Kim YH, Titchenell PM, Hill DA, Lu W, Damle M, Wan M, Zhang Y, Briggs ER, Rabinowitz JD, Lazar MA. Physiological Suppression of Lipotoxic Liver Damage by Complementary Actions of HDAC3 and SCAP/SREBP. Cell Metab. 2016;24(6):863–874. PMCID: PMC5159233
1.
Ducker GS, Chen L, Morscher RJ, Ghergurovich JM, Esposito M, Teng X, Kang Y, Rabinowitz JD. Reversal of Cytosolic One-Carbon Flux Compensates for Loss of the Mitochondrial Folate Pathway. Cell Metab. 2016;.
1.
Ron-Harel N, Santos D, Ghergurovich JM, Sage PT, Reddy A, Lovitch SB, Dephoure N, Satterstrom K, Sheffer M, Spinelli JB, Gygi S, Rabinowitz JD, Sharpe AH, Haigis MC. Mitochondrial Biogenesis and Proteome Remodeling Promote One-Carbon Metabolism for T Cell Activation. Cell Metab. 2016;24(1):104–17. PMID: 27411012
1.
Ferraro T, Esposito E, Mancini L, Ng S, Lucas T, Coppey M, Dostatni N, Walczak AM, Levine M, Lagha M. Transcriptional Memory in the Drosophila Embryo. Curr Biol. 2016;26(2):212–8.