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Creative Data Solutions (CDS) is a Vanderbilt Shared Resource and has extensive experience in providing effective and robust solutions to challenges pertaining to research data using modern informatics and bioinformatics approaches.
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Connections to Isotope Labeling are shown below. Double-click or tap a node for more information.
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Publications
- Glucose-independent glutamine metabolism via TCA cycling for proliferation and survival in B cells.
Le A, Lane AN, Hamaker M, Bose S, Gouw A, Barbi J, Tsukamoto T, Rojas CJ, Slusher BS, Zhang H, Zimmerman LJ, Liebler DC, Slebos RJ, Lorkiewicz PK, Higashi RM, Fan TW, Dang CV
(2012) Cell Metab 15: 110-21 - Heteronuclear three-dimensional NMR spectroscopy of isotopically labelled biological macromolecules.
Fesik SW, Zuiderweg ER
(1990) Q Rev Biophys 23: 97-131 - Spectroscopic characterization of interstrand carbinolamine cross-links formed in the 5'-CpG-3' sequence by the acrolein-derived gamma-OH-1,N2-propano-2'-deoxyguanosine DNA adduct.
Cho YJ, Kim HY, Huang H, Slutsky A, Minko IG, Wang H, Nechev LV, Kozekov ID, Kozekova A, Tamura P, Jacob J, Voehler M, Harris TM, Lloyd RS, Rizzo CJ, Stone MP
(2005) J Am Chem Soc 127: 17686-96 - Isotope-Labeling Studies Support the Electrophilic Compound I Iron Active Species, FeO(3+), for the Carbon-Carbon Bond Cleavage Reaction of the Cholesterol Side-Chain Cleavage Enzyme, Cytochrome P450 11A1.
Yoshimoto FK, Jung IJ, Goyal S, Gonzalez E, Guengerich FP
(2016) J Am Chem Soc 138: 12124-41 - 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: 2129-37 - Isotopically nonstationary metabolic flux analysis (INST-MFA): putting theory into practice.
Cheah YE, Young JD
(2018) Curr Opin Biotechnol 54: 80-87 - 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 36: 50-6 - 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 34: 189-201 - Tracing metabolic flux through time and space with isotope labeling experiments.
Allen DK, Young JD
(2020) Curr Opin Biotechnol 64: 92-100 - Targeted peptide measurements in biology and medicine: best practices for mass spectrometry-based assay development using a fit-for-purpose approach.
Carr SA, Abbatiello SE, Ackermann BL, Borchers C, Domon B, Deutsch EW, Grant RP, Hoofnagle AN, Hüttenhain R, Koomen JM, Liebler DC, Liu T, MacLean B, Mani DR, Mansfield E, Neubert H, Paulovich AG, Reiter L, Vitek O, Aebersold R, Anderson L, Bethem R, Blonder J, Boja E, Botelho J, Boyne M, Bradshaw RA, Burlingame AL, Chan D, Keshishian H, Kuhn E, Kinsinger C, Lee JS, Lee SW, Moritz R, Oses-Prieto J, Rifai N, Ritchie J, Rodriguez H, Srinivas PR, Townsend RR, Van Eyk J, Whiteley G, Wiita A, Weintraub S
(2014) Mol Cell Proteomics 13: 907-17 - Preprocessing significantly improves the peptide/protein identification sensitivity of high-resolution isobarically labeled tandem mass spectrometry data.
Sheng Q, Li R, Dai J, Li Q, Su Z, Guo Y, Li C, Shyr Y, Zeng R
(2015) Mol Cell Proteomics 14: 405-17 - Assembly Dynamics and Stoichiometry of the Apoptosis Signal-regulating Kinase (ASK) Signalosome in Response to Electrophile Stress.
Federspiel JD, Codreanu SG, Palubinsky AM, Winland AJ, Betanzos CM, McLaughlin B, Liebler DC
(2016) Mol Cell Proteomics 15: 1947-61 - Methods for peptide and protein quantitation by liquid chromatography-multiple reaction monitoring mass spectrometry.
Zhang H, Liu Q, Zimmerman LJ, Ham AJ, Slebos RJ, Rahman J, Kikuchi T, Massion PP, Carbone DP, Billheimer D, Liebler DC
(2011) Mol Cell Proteomics 10: M110.006593 - Stable isotope ratiometer-multiple ion detector unit for quantitative and qualitative stable isotope studies by gas chromatography-mass spectrometry.
Klein PD, Haumann JR, Hachey DL
(1975) Clin Chem 21: 1253-7 - Mapping photoautotrophic metabolism with isotopically nonstationary (13)C flux analysis.
Young JD, Shastri AA, Stephanopoulos G, Morgan JA
(2011) Metab Eng 13: 656-65 - 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: 218-225 - Carbon and nitrogen provisions alter the metabolic flux in developing soybean embryos.
Allen DK, Young JD
(2013) Plant Physiol 161: 1458-75 - Use of deuterium labeling in NMR: overcoming a sizeable problem.
Sattler M, Fesik SW
(1996) Structure 4: 1245-9 - Absolute quantification of phosphorylation on the kinase activation loop of cellular focal adhesion kinase by stable isotope dilution liquid chromatography/mass spectrometry.
Ciccimaro E, Hanks SK, Yu KH, Blair IA
(2009) Anal Chem 81: 3304-13 - 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: 1362-70 - Elucidation of functions of human cytochrome P450 enzymes: identification of endogenous substrates in tissue extracts using metabolomic and isotopic labeling approaches.
Tang Z, Martin MV, Guengerich FP
(2009) Anal Chem 81: 3071-8 - Quantification of protein expression changes in the aging left ventricle of Rattus norvegicus.
Grant JE, Bradshaw AD, Schwacke JH, Baicu CF, Zile MR, Schey KL
(2009) J Proteome Res 8: 4252-63 - Global impact of oncogenic Src on a phosphotyrosine proteome.
Luo W, Slebos RJ, Hill S, Li M, Brábek J, Amanchy R, Chaerkady R, Pandey A, Ham AJ, Hanks SK
(2008) J Proteome Res 7: 3447-60 - 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: 20125-20140 - Isotopic tagging of oxidized and reduced cysteines (iTORC) for detecting and quantifying sulfenic acids, disulfides, and free thiols in cells.
Albertolle ME, Glass SM, Trefts E, Guengerich FP
(2019) J Biol Chem 294: 6522-6530 - Mechanism of 17α,20-Lyase and New Hydroxylation Reactions of Human Cytochrome P450 17A1: 18O LABELING AND OXYGEN SURROGATE EVIDENCE FOR A ROLE OF A PERFERRYL OXYGEN.
Yoshimoto FK, Gonzalez E, Auchus RJ, Guengerich FP
(2016) J Biol Chem 291: 17143-64 - 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: E191-203 - Synthesis of 11, 12-2H2- and 11, 12-3H2-labeled chenodeoxycholic and lithocholic acids.
Cowen AE, Hofmann AF, Hachey DL, Thomas PJ, Belobaba DT, Klein PD, Tökes L
(1976) J Lipid Res 17: 231-8 - An oxysterol biomarker for 7-dehydrocholesterol oxidation in cell/mouse models for Smith-Lemli-Opitz syndrome.
Xu L, Korade Z, Rosado JDA, Liu W, Lamberson CR, Porter NA
(2011) J Lipid Res 52: 1222-1233 - Validation of a new procedure to determine plasma fatty acid concentration and isotopic enrichment.
Patterson BW, Zhao G, Elias N, Hachey DL, Klein S
(1999) J Lipid Res 40: 2118-24 - Kinetic deuterium isotope effects for 7-alkoxycoumarin O-dealkylation reactions catalyzed by human cytochromes P450 and in liver microsomes. Rate-limiting C-H bond breaking in cytochrome P450 1A2 substrate oxidation.
Kim KH, Isin EM, Yun CH, Kim DH, Guengerich FP
(2006) FEBS J 273: 2223-31 - Doubly labeled water is a validated and verified reference standard in nutrition research.
Buchowski MS
(2014) J Nutr 144: 573-4 - A multidimensional proteomic approach to identify hypertrophy-associated proteins.
Lindsey ML, Goshorn DK, Comte-Walters S, Hendrick JW, Hapke E, Zile MR, Schey K
(2006) Proteomics 6: 2225-35 - Regioselective binding of 2,5-hexanedione to high-molecular-weight rat neurofilament proteins in vitro.
DeCaprio AP, Kinney EA, Fowke JH
(1997) Toxicol Appl Pharmacol 145: 211-7 - Stereospecific formation of interstrand carbinolamine DNA cross-links by crotonaldehyde- and acetaldehyde-derived alpha-CH3-gamma-OH-1,N2-propano-2'-deoxyguanosine adducts in the 5'-CpG-3' sequence.
Cho YJ, Wang H, Kozekov ID, Kurtz AJ, Jacob J, Voehler M, Smith J, Harris TM, Lloyd RS, Rizzo CJ, Stone MP
(2006) Chem Res Toxicol 19: 195-208 - Mechanism of formation of ethenoguanine adducts from 2-haloacetaldehydes: 13C-labeling patterns with 2-bromoacetaldehyde.
Guengerich FP, Persmark M
(1994) Chem Res Toxicol 7: 205-8 - Pyrimido[1,2-alpha]purin-10(3H)-one: a reactive electrophile in the genome.
Schnetz-Boutaud N, Daniels JS, Hashim MF, Scholl P, Burrus T, Marnett LJ
(2000) Chem Res Toxicol 13: 967-70 - Formation of 1,N2- and N2,3-ethenoguanine from 2-halooxiranes: isotopic labeling studies and isolation of a hemiaminal derivative of N2-(2-oxoethyl)guanine.
Guengerich FP, Persmark M, Humphreys WG
(1993) Chem Res Toxicol 6: 635-48 - 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: 686-99 - 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: 2013-24
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