None provided


The following timeline graph is generated from all co-authored publications.

Featured publications are shown below:

  1. Vitamin E does not prevent Western diet-induced NASH progression and increases metabolic flux dysregulation in mice. Hasenour CM, Kennedy AJ, Bednarski T, Trenary IA, Eudy BJ, da Silva RP, Boyd KL, Young JD (2020) J Lipid Res 61(5): 707-721
    › Primary publication · 32086244 (PubMed) · PMC7193953 (PubMed Central)
  2. Simultaneous tracers and a unified model of positional and mass isotopomers for quantification of metabolic flux in liver. Deja S, Fu X, Fletcher JA, Kucejova B, Browning JD, Young JD, Burgess SC (2020) Metab Eng : 1-14
    › Primary publication · 31891762 (PubMed) · PMC7108978 (PubMed Central)
  3. Tracing metabolic flux through time and space with isotope labeling experiments. Allen DK, Young JD (2020) Curr Opin Biotechnol : 92-100
    › Primary publication · 31864070 (PubMed) · PMC7302994 (PubMed Central)
  4. Applications of stable isotope-based metabolomics and fluxomics toward synthetic biology of cyanobacteria. Babele PK, Young JD (2020) Wiley Interdiscip Rev Syst Biol Med 12(3): e1472
    › Primary publication · 31816180 (PubMed)
  5. Genome-Scale Model-Based Identification of Metabolite Indicators for Early Detection of Kidney Toxicity. Pannala VR, Vinnakota KC, Estes SK, Trenary I, OˈBrien TP, Printz RL, Papin JA, Reifman J, Oyama T, Shiota M, Young JD, Wallqvist A (2020) Toxicol Sci 173(2): 293-312
    › Primary publication · 31722432 (PubMed) · PMC8000070 (PubMed Central)
  6. Mechanistic identification of biofluid metabolite changes as markers of acetaminophen-induced liver toxicity in rats. Pannala VR, Vinnakota KC, Rawls KD, Estes SK, O'Brien TP, Printz RL, Papin JA, Reifman J, Shiota M, Young JD, Wallqvist A (2019) Toxicol Appl Pharmacol : 19-32
    › Primary publication · 30974156 (PubMed) · PMC6599641 (PubMed Central)
  7. Network Modeling of Liver Metabolism to Predict Plasma Metabolite Changes During Short-Term Fasting in the Laboratory Rat. Vinnakota KC, Pannala VR, Wall ML, Rahim M, Estes SK, Trenary I, O'Brien TP, Printz RL, Reifman J, Shiota M, Young JD, Wallqvist A (2019) Front Physiol : 161
    › Primary publication · 30881311 (PubMed) · PMC6405515 (PubMed Central)
  8. Glutamate-oxaloacetate transaminase activity promotes palmitate lipotoxicity in rat hepatocytes by enhancing anaplerosis and citric acid cycle flux. Egnatchik RA, Leamy AK, Sacco SA, Cheah YE, Shiota M, Young JD (2019) J Biol Chem 294(9): 3081-3090
    › Primary publication · 30563841 (PubMed) · PMC6398133 (PubMed Central)
  9. Metabolic network-based predictions of toxicant-induced metabolite changes in the laboratory rat. Pannala VR, Wall ML, Estes SK, Trenary I, O'Brien TP, Printz RL, Vinnakota KC, Reifman J, Shiota M, Young JD, Wallqvist A (2018) Sci Rep 8(1): 11678
    › Primary publication · 30076366 (PubMed) · PMC6076258 (PubMed Central)
  10. xCT (SLC7A11)-mediated metabolic reprogramming promotes non-small cell lung cancer progression. Ji X, Qian J, Rahman SMJ, Siska PJ, Zou Y, Harris BK, Hoeksema MD, Trenary IA, Heidi C, Eisenberg R, Rathmell JC, Young JD, Massion PP (2018) Oncogene 37(36): 5007-5019
    › Primary publication · 29789716 (PubMed) · PMC6127081 (PubMed Central)
  11. The TLR4 Agonist Monophosphoryl Lipid A Drives Broad Resistance to Infection via Dynamic Reprogramming of Macrophage Metabolism. Fensterheim BA, Young JD, Luan L, Kleinbard RR, Stothers CL, Patil NK, McAtee-Pereira AG, Guo Y, Trenary I, Hernandez A, Fults JB, Williams DL, Sherwood ER, Bohannon JK (2018) J Immunol 200(11): 3777-3789
    › Primary publication · 29686054 (PubMed) · PMC5964009 (PubMed Central)
  12. Isotopically nonstationary metabolic flux analysis (INST-MFA): putting theory into practice. Cheah YE, Young JD (2018) Curr Opin Biotechnol : 80-87
    › Primary publication · 29522915 (PubMed)
  13. C Flux Analysis Reveals that Rebalancing Medium Amino Acid Composition can Reduce Ammonia Production while Preserving Central Carbon Metabolism of CHO Cell Cultures. McAtee Pereira AG, Walther JL, Hollenbach M, Young JD (2018) Biotechnol J 13(10): e1700518
    › Primary publication · 29405605 (PubMed)
  14. Insulin exits skeletal muscle capillaries by fluid-phase transport. Williams IM, Valenzuela FA, Kahl SD, Ramkrishna D, Mezo AR, Young JD, Wells KS, Wasserman DH (2018) J Clin Invest 128(2): 699-714
    › Primary publication · 29309051 (PubMed) · PMC5785264 (PubMed Central)
  15. Loss of hepatic AMP-activated protein kinase impedes the rate of glycogenolysis but not gluconeogenic fluxes in exercising mice. Hughey CC, James FD, Bracy DP, Donahue EP, Young JD, Viollet B, Foretz M, Wasserman DH (2017) J Biol Chem 292(49): 20125-20140
    › Primary publication · 29038293 (PubMed) · PMC5724001 (PubMed Central)
  16. Lactate Metabolism in Human Lung Tumors. Faubert B, Li KY, Cai L, Hensley CT, Kim J, Zacharias LG, Yang C, Do QN, Doucette S, Burguete D, Li H, Huet G, Yuan Q, Wigal T, Butt Y, Ni M, Torrealba J, Oliver D, Lenkinski RE, Malloy CR, Wachsmann JW, Young JD, Kernstine K, DeBerardinis RJ (2017) Cell 171(2): 358-371.e9
    › Primary publication · 28985563 (PubMed) · PMC5684706 (PubMed Central)
  17. Isotopically Nonstationary Metabolic Flux Analysis (INST-MFA) of Photosynthesis and Photorespiration in Plants. Ma F, Jazmin LJ, Young JD, Allen DK (2017) Methods Mol Biol : 167-194
    › Primary publication · 28822133 (PubMed)
  18. Dysfunctional BMPR2 signaling drives an abnormal endothelial requirement for glutamine in pulmonary arterial hypertension. Egnatchik RA, Brittain EL, Shah AT, Fares WH, Ford HJ, Monahan K, Kang CJ, Kocurek EG, Zhu S, Luong T, Nguyen TT, Hysinger E, Austin ED, Skala MC, Young JD, Roberts LJ, Hemnes AR, West J, Fessel JP (2017) Pulm Circ 7(1): 186-199
    › Primary publication · 28680578 (PubMed) · PMC5448547 (PubMed Central)
  19. Isotopically nonstationary C flux analysis of cyanobacterial isobutyraldehyde production. Jazmin LJ, Xu Y, Cheah YE, Adebiyi AO, Johnson CH, Young JD (2017) Metab Eng : 9-18
    › Primary publication · 28479191 (PubMed) · PMC5660605 (PubMed Central)
  20. Dependence On Glycolysis Sensitizes BRAF-mutated Melanomas For Increased Response To Targeted BRAF Inhibition. Hardeman KN, Peng C, Paudel BB, Meyer CT, Luong T, Tyson DR, Young JD, Quaranta V, Fessel JP (2017) Sci Rep : 42604
    › Primary publication · 28205616 (PubMed) · PMC5311997 (PubMed Central)
  21. Application of C flux analysis to identify high-productivity CHO metabolic phenotypes. Templeton N, Smith KD, McAtee-Pereira AG, Dorai H, Betenbaugh MJ, Lang SE, Young JD (2017) Metab Eng 43(Pt B): 218-225
    › Primary publication · 28122259 (PubMed)
  22. Liver AMP-Activated Protein Kinase Is Unnecessary for Gluconeogenesis but Protects Energy State during Nutrient Deprivation. Hasenour CM, Ridley DE, James FD, Hughey CC, Donahue EP, Viollet B, Foretz M, Young JD, Wasserman DH (2017) PLoS One 12(1): e0170382
    › Primary publication · 28107516 (PubMed) · PMC5249187 (PubMed Central)
  23. The airway epithelium undergoes metabolic reprogramming in individuals at high risk for lung cancer. Rahman SMJ, Ji X, Zimmerman LJ, Li M, Harris BK, Hoeksema MD, Trenary IA, Zou Y, Qian J, Slebos RJ, Beane J, Spira A, Shyr Y, Eisenberg R, Liebler DC, Young JD, Massion PP (2016) JCI Insight 1(19): e88814
    › Primary publication · 27882349 (PubMed) · PMC5111517 (PubMed Central)
  24. Oncogenic KRAS and BRAF Drive Metabolic Reprogramming in Colorectal Cancer. Hutton JE, Wang X, Zimmerman LJ, Slebos RJ, Trenary IA, Young JD, Li M, Liebler DC (2016) Mol Cell Proteomics 15(9): 2924-38
    › Primary publication · 27340238 (PubMed) · PMC5013308 (PubMed Central)
  25. Knockdown of triglyceride synthesis does not enhance palmitate lipotoxicity or prevent oleate-mediated rescue in rat hepatocytes. Leamy AK, Hasenour CM, Egnatchik RA, Trenary IA, Yao CH, Patti GJ, Shiota M, Young JD (2016) Biochim Biophys Acta 1861(9 Pt A): 1005-1014
    › Primary publication · 27249207 (PubMed) · PMC4947436 (PubMed Central)
  26. Modeling Method for Increased Precision and Scope of Directly Measurable Fluxes at a Genome-Scale. McCloskey D, Young JD, Xu S, Palsson BO, Feist AM (2016) Anal Chem 88(7): 3844-52
    › Primary publication · 26981784 (PubMed)
  27. MID Max: LC-MS/MS Method for Measuring the Precursor and Product Mass Isotopomer Distributions of Metabolic Intermediates and Cofactors for Metabolic Flux Analysis Applications. McCloskey D, Young JD, Xu S, Palsson BO, Feist AM (2016) Anal Chem 88(2): 1362-70
    › Primary publication · 26666286 (PubMed)
  28. Application of isotope labeling experiments and (13)C flux analysis to enable rational pathway engineering. McAtee AG, Jazmin LJ, Young JD (2015) Curr Opin Biotechnol : 50-6
    › Primary publication · 26319894 (PubMed)
  29. LKB1 deficiency enhances sensitivity to energetic stress induced by erlotinib treatment in non-small-cell lung cancer (NSCLC) cells. Whang YM, Park SI, Trenary IA, Egnatchik RA, Fessel JP, Kaufman JM, Carbone DP, Young JD (2016) Oncogene 35(7): 856-66
    › Primary publication · 26119936 (PubMed) · PMC4486321 (PubMed Central)
  30. Mass spectrometry-based microassay of (2)H and (13)C plasma glucose labeling to quantify liver metabolic fluxes in vivo. Hasenour CM, Wall ML, Ridley DE, Hughey CC, James FD, Wasserman DH, Young JD (2015) Am J Physiol Endocrinol Metab 309(2): E191-203
    › Primary publication · 25991647 (PubMed) · PMC4504936 (PubMed Central)
  31. A roadmap for interpreting (13)C metabolite labeling patterns from cells. Buescher JM, Antoniewicz MR, Boros LG, Burgess SC, Brunengraber H, Clish CB, DeBerardinis RJ, Feron O, Frezza C, Ghesquiere B, Gottlieb E, Hiller K, Jones RG, Kamphorst JJ, Kibbey RG, Kimmelman AC, Locasale JW, Lunt SY, Maddocks OD, Malloy C, Metallo CM, Meuillet EJ, Munger J, Nöh K, Rabinowitz JD, Ralser M, Sauer U, Stephanopoulos G, St-Pierre J, Tennant DA, Wittmann C, Vander Heiden MG, Vazquez A, Vousden K, Young JD, Zamboni N, Fendt SM (2015) Curr Opin Biotechnol : 189-201
    › Primary publication · 25731751 (PubMed) · PMC4552607 (PubMed Central)
  32. Novel stable isotope analyses demonstrate significant rates of glucose cycling in mouse pancreatic islets. Wall ML, Pound LD, Trenary I, O'Brien RM, Young JD (2015) Diabetes 64(6): 2129-37
    › Primary publication · 25552595 (PubMed) · PMC4439557 (PubMed Central)
  33. Editorial overview: pharmaceutical biotechnology: engineering cells for high quality biopharmaceuticals production. Junker BH, Young JD (2014) Curr Opin Biotechnol : viii-x
    › Primary publication · 25459164 (PubMed)
  34. (13)C metabolic flux analysis of recombinant expression hosts. Young JD (2014) Curr Opin Biotechnol : 238-45
    › Primary publication · 25456032 (PubMed)
  35. Isotopically nonstationary 13C flux analysis of changes in Arabidopsis thaliana leaf metabolism due to high light acclimation. Ma F, Jazmin LJ, Young JD, Allen DK (2014) Proc Natl Acad Sci U S A 111(47): 16967-72
    › Primary publication · 25368168 (PubMed) · PMC4250135 (PubMed Central)
  36. 13 C flux analysis of cyanobacterial metabolism. Adebiyi AO, Jazmin LJ, Young JD (2015) Photosynth Res 126(1): 19-32
    › Primary publication · 25280933 (PubMed)
  37. ER calcium release promotes mitochondrial dysfunction and hepatic cell lipotoxicity in response to palmitate overload. Egnatchik RA, Leamy AK, Jacobson DA, Shiota M, Young JD (2014) Mol Metab 3(5): 544-53
    › Primary publication · 25061559 (PubMed) · PMC4099508 (PubMed Central)
  38. The impact of anti-apoptotic gene Bcl-2∆ expression on CHO central metabolism. Templeton N, Lewis A, Dorai H, Qian EA, Campbell MP, Smith KD, Lang SE, Betenbaugh MJ, Young JD (2014) Metab Eng : 92-102
    › Primary publication · 25014175 (PubMed)
  39. Enhanced synthesis of saturated phospholipids is associated with ER stress and lipotoxicity in palmitate treated hepatic cells. Leamy AK, Egnatchik RA, Shiota M, Ivanova PT, Myers DS, Brown HA, Young JD (2014) J Lipid Res 55(7): 1478-88
    › Primary publication · 24859739 (PubMed) · PMC4076085 (PubMed Central)
  40. INCA: a computational platform for isotopically non-stationary metabolic flux analysis. Young JD (2014) Bioinformatics 30(9): 1333-5
    › Primary publication · 24413674 (PubMed) · PMC3998137 (PubMed Central)
  41. Palmitate-induced activation of mitochondrial metabolism promotes oxidative stress and apoptosis in H4IIEC3 rat hepatocytes. Egnatchik RA, Leamy AK, Noguchi Y, Shiota M, Young JD (2014) Metabolism 63(2): 283-95
    › Primary publication · 24286856 (PubMed) · PMC3946971 (PubMed Central)
  42. Isotopically nonstationary MFA (INST-MFA) of autotrophic metabolism. Jazmin LJ, O'Grady JP, Ma F, Allen DK, Morgan JA, Young JD (2014) Methods Mol Biol : 181-210
    › Primary publication · 24222417 (PubMed)
  43. Isotopomer measurement techniques in metabolic flux analysis II: mass spectrometry. Young JD, Allen DK, Morgan JA (2014) Methods Mol Biol : 85-108
    › Primary publication · 24218212 (PubMed)
  44. Mapping cancer cell metabolism with(13)C flux analysis: Recent progress and future challenges. Duckwall CS, Murphy TA, Young JD (2013) J Carcinog : 13
    › Primary publication · 23961260 (PubMed) · PMC3746411 (PubMed Central)
  45. Metabolic flux rewiring in mammalian cell cultures. Young JD (2013) Curr Opin Biotechnol 24(6): 1108-15
    › Primary publication · 23726154 (PubMed) · PMC3775942 (PubMed Central)
  46. Isotopically nonstationary 13C metabolic flux analysis. Jazmin LJ, Young JD (2013) Methods Mol Biol : 367-90
    › Primary publication · 23417813 (PubMed)
  47. Peak antibody production is associated with increased oxidative metabolism in an industrially relevant fed-batch CHO cell culture. Templeton N, Dean J, Reddy P, Young JD (2013) Biotechnol Bioeng 110(7): 2013-24
    › Primary publication · 23381838 (PubMed)
  48. Carbon and nitrogen provisions alter the metabolic flux in developing soybean embryos. Allen DK, Young JD (2013) Plant Physiol 161(3): 1458-75
    › Primary publication · 23314943 (PubMed) · PMC3585609 (PubMed Central)
  49. ETA: robust software for determination of cell specific rates from extracellular time courses. Murphy TA, Young JD (2013) Biotechnol Bioeng 110(6): 1748-58
    › Primary publication · 23296385 (PubMed) · PMC3863648 (PubMed Central)
  50. Molecular mechanisms and the role of saturated fatty acids in the progression of non-alcoholic fatty liver disease. Leamy AK, Egnatchik RA, Young JD (2013) Prog Lipid Res 52(1): 165-74
    › Primary publication · 23178552 (PubMed) · PMC3868987 (PubMed Central)
  51. Isotopically nonstationary 13C flux analysis of Myc-induced metabolic reprogramming in B-cells. Murphy TA, Dang CV, Young JD (2013) Metab Eng : 206-17
    › Primary publication · 22898717 (PubMed) · PMC3535509 (PubMed Central)
  52. PPARγ isoforms differentially regulate metabolic networks to mediate mouse prostatic epithelial differentiation. Strand DW, Jiang M, Murphy TA, Yi Y, Konvinse KC, Franco OE, Wang Y, Young JD, Hayward SW (2012) Cell Death Dis : e361
    › Primary publication · 22874998 (PubMed) · PMC3434663 (PubMed Central)
  53. Mapping photoautotrophic metabolism with isotopically nonstationary (13)C flux analysis. Young JD, Shastri AA, Stephanopoulos G, Morgan JA (2011) Metab Eng 13(6): 656-65
    › Primary publication · 21907300 (PubMed) · PMC3210925 (PubMed Central)
  54. Fluxomers: a new approach for 13C metabolic flux analysis. Srour O, Young JD, Eldar YC (2011) BMC Syst Biol : 129
    › Primary publication · 21846358 (PubMed) · PMC3750106 (PubMed Central)
  55. Computational approaches in metabolic engineering. Reed JL, Senger RS, Antoniewicz MR, Young JD (2010) J Biomed Biotechnol : 207414
    › Primary publication · 21584279 (PubMed) · PMC3092504 (PubMed Central)
  56. Tracking cellular metabolomics in lipoapoptosis- and steatosis-developing liver cells. Noguchi Y, Young JD, Aleman JO, Hansen ME, Kelleher JK, Stephanopoulos G (2011) Mol Biosyst 7(5): 1409-19
    › Primary publication · 21327189 (PubMed)
  57. Ketogenic essential amino acids modulate lipid synthetic pathways and prevent hepatic steatosis in mice. Noguchi Y, Nishikata N, Shikata N, Kimura Y, Aleman JO, Young JD, Koyama N, Kelleher JK, Takahashi M, Stephanopoulos G (2010) PLoS One 5(8): e12057
    › Primary publication · 20706589 (PubMed) · PMC2919399 (PubMed Central)
  58. Effect of anaplerotic fluxes and amino acid availability on hepatic lipoapoptosis. Noguchi Y, Young JD, Aleman JO, Hansen ME, Kelleher JK, Stephanopoulos G (2009) J Biol Chem 284(48): 33425-36
    › Primary publication · 19758988 (PubMed) · PMC2785187 (PubMed Central)
  59. Integrating cybernetic modeling with pathway analysis provides a dynamic, systems-level description of metabolic control. Young JD, Henne KL, Morgan JA, Konopka AE, Ramkrishna D (2008) Biotechnol Bioeng 100(3): 542-59
    › Primary publication · 18438875 (PubMed)
  60. An elementary metabolite unit (EMU) based method of isotopically nonstationary flux analysis. Young JD, Walther JL, Antoniewicz MR, Yoo H, Stephanopoulos G (2008) Biotechnol Bioeng 99(3): 686-99
    › Primary publication · 17787013 (PubMed)
  61. On the matching and proportional laws of cybernetic models. Young JD, Ramkrishna D (2007) Biotechnol Prog 23(1): 83-99
    › Primary publication · 17269675 (PubMed)