Publications

Perkins AN, Inayat-Hussain SH, Deziel NC, Johnson CH, Ferguson SS, Garcia-Milian R, Thompson DC, Vasiliou V: Evaluation of potential carcinogenicity of organic chemicals in synthetic turf crumb rubber. Environ Res. 2019 Feb; 2018 Oct 24. PMID: 30458352

Warth B, Palermo A, Rattray NJW, Lee NV, Zhu Z, Hoang LT, Cai Y, Mazurek A, Dann S, VanArsdale T, Fantin VR, Shields D, Siuzdak G, Johnson CH: Palbociclib and Fulvestrant Act in Synergy to Modulate Central Carbon Metabolism in Breast Cancer Cells. Metabolites. 2019 Jan 2; 2019 Jan 2. PMID: 30609717

Jacobs D, Zhu R, Luo J, Grisotti G, Heller DR, Kurbatov V, Johnson CH, Zhang Y, Khan SA: Defining Early-Onset Colon and Rectal Cancers. Front Oncol. 2018; 2018 Nov 6. PMID: 30460196

Robinson AR, Yousefzadeh MJ, Rozgaja TA, Wang J, Li X, Tilstra JS, Feldman CH, Gregg SQ, Johnson CH, Skoda EM, Frantz MC, Bell-Temin H, Pope-Varsalona H, Gurkar AU, Nasto LA, Robinson RAS, Fuhrmann-Stroissnigg H, Czerwinska J, McGowan SJ, Cantu-Medellin N, Harris JB, Maniar S, Ross MA, Trussoni CE, LaRusso NF, Cifuentes-Pagano E, Pagano PJ, Tudek B, Vo NV, Rigatti LH, Opresko PL, Stolz DB, Watkins SC, Burd CE, Croix CMS, Siuzdak G, Yates NA, Robbins PD, Wang Y, Wipf P, Kelley EE, Niedernhofer LJ: Spontaneous DNA damage to the nuclear genome promotes senescence, redox imbalance and aging. Redox Biol. 2018 Jul; 2018 Apr 13. PMID: 29747066

Zhu R, Liu F, Grisotti G, Pérez-Irizarry J, Cha CH, Johnson CH, Boffa DJ, Han D, Johung KL, Zhang Y, Khan SA: Distinctive features of gastrointestinal stromal tumors arising from the colon and rectum. J Gastrointest Oncol. 2018 Apr. PMID: 29755761

Warth B, Raffeiner P, Granados A, Huan T, Fang M, Forsberg EM, Benton HP, Goetz L, Johnson CH, Siuzdak G: Metabolomics Reveals that Dietary Xenoestrogens Alter Cellular Metabolism Induced by Palbociclib/Letrozole Combination Cancer Therapy. Cell Chem Biol. 2018 Mar 15; 2018 Jan 11. PMID: 29337187

Wang Y, Chen Y, Guan L, Zhang H, Huang Y, Johnson CH, Wu Z, Gonzalez FJ, Yu A, Huang P, Wang Y, Yang S, Chen P, Fan X, Huang M, Bi H: Carnitine palmitoyltransferase 1C regulates cancer cell senescence through mitochondria-associated metabolic reprograming. Cell Death Differ. 2018 Mar; 2018 Jan 9. PMID: 29317762

Charkoftaki G, Rattray NJW, Andrén PE, Caprioli RM, Castellino S, Duncan MW, Goodwin RJA, Schey KL, Shahidi-Latham SK, Veselkov KA, Johnson CH, Vasiliou V: Yale School of Public Health Symposium on tissue imaging mass spectrometry: illuminating phenotypic heterogeneity and drug disposition at the molecular level. Hum Genomics. 2018 Feb 27; 2018 Feb 27. PMID: 29482659

Rattray Z, Dubljevic V, Rattray NJW, Greenwood DL, Johnson CH, Campbell JA, Hansen JE: Re-engineering and evaluation of anti-DNA autoantibody 3E10 for therapeutic applications. Biochem Biophys Res Commun. 2018 Feb 12; 2018 Jan 31. PMID: 29374508

Rattray NJW, Deziel NC, Wallach JD, Khan SA, Vasiliou V, Ioannidis JPA, Johnson CH: Beyond genomics: understanding exposotypes through metabolomics. Hum Genomics. 2018 Jan 26; 2018 Jan 26. PMID: 29373992

Johnson CH, Athersuch TJ, Collman GW, Dhungana S, Grant DF, Jones DP, Patel CJ, Vasiliou V: Yale school of public health symposium on lifetime exposures and human health: the exposome; summary and future reflections. Hum Genomics. 2017 Dec 8; 2017 Dec 8. PMID: 29221465

Warth B, Spangler S, Fang M, Johnson CH, Forsberg EM, Granados A, Martin RL, Domingo-Almenara X, Huan T, Rinehart D, Montenegro-Burke JR, Hilmers B, Aisporna A, Hoang LT, Uritboonthai W, Benton HP, Richardson SD, Williams AJ, Siuzdak G: Exposome-Scale Investigations Guided by Global Metabolomics, Pathway Analysis, and Cognitive Computing. Anal Chem. 2017 Nov 7; 2017 Oct 9. PMID: 28945073

Johnson CH, Santidrian AF, LeBoeuf SE, Kurczy ME, Rattray NJW, Rattray Z, Warth B, Ritland M, Hoang LT, Loriot C, Higa J, Hansen JE, Felding BH, Siuzdak G: Metabolomics guided pathway analysis reveals link between cancer metastasis, cholesterol sulfate, and phospholipids. Cancer Metab. 2017; 2017 Oct 31. PMID: 29093815

Rattray NJW, Charkoftaki G, Rattray Z, Hansen JE, Vasiliou V, Johnson CH: Environmental influences in the etiology of colorectal cancer: the premise of metabolomics. Curr Pharmacol Rep. 2017 Jun; 2017 Apr 7. PMID: 28642837

Huan T, Forsberg EM, Rinehart D, Johnson CH, Ivanisevic J, Benton HP, Fang M, Aisporna A, Hilmers B, Poole FL, Thorgersen MP, Adams MWW, Krantz G, Fields MW, Robbins PD, Niedernhofer LJ, Ideker T, Majumder EL, Wall JD, Rattray NJW, Goodacre R, Lairson LL, Siuzdak G: Systems biology guided by XCMS Online metabolomics. Nat Methods. 2017 Apr 27. PMID: 28448069

Chen Y, Wang Y, Huang Y, Zeng H, Hu B, Guan L, Zhang H, Yu AM, Johnson CH, Gonzalez FJ, Huang M, Bi H: PPARα regulates tumor cell proliferation and senescence via a novel target gene carnitine palmitoyltransferase 1C. Carcinogenesis. 2017 Apr 1. PMID: 28334197

Johnson CH, Spilker ME, Goetz L, Peterson SN, Siuzdak G: Metabolite and Microbiome Interplay in Cancer Immunotherapy. Cancer Res. 2016 Nov 1; 2016 Oct 11. PMID: 27729325

Johnson CH, Ivanisevic J, Siuzdak G: Metabolomics: beyond biomarkers and towards mechanisms. Nat Rev Mol Cell Biol. 2016 Jul; 2016 Mar 16. PMID: 26979502

Yu T, Wang Y, Zhang H, Johnson CH, Jiang Y, Li X, Wu Z, Liu T, Krausz KW, Yu A, Gonzalez FJ, Huang M, Bi H: Metabolomics reveals mycoplasma contamination interferes with the metabolism of PANC-1 cells. Anal Bioanal Chem. 2016 Jun; 2016 Apr 13. PMID: 27074779

Paris LP, Johnson CH, Aguilar E, Usui Y, Cho K, Hoang LT, Feitelberg D, Benton HP, Westenskow PD, Kurihara T, Trombley J, Tsubota K, Ueda S, Wakabayashi Y, Patti GJ, Ivanisevic J, Siuzdak G, Friedlander M: Global metabolomics reveals metabolic dysregulation in ischemic retinopathy. Metabolomics. 2016; 2015 Nov 18. PMID: 26617478

Kurczy ME, Ivanisevic J, Johnson CH, Uritboonthai W, Hoang L, Fang M, Hicks M, Aldebot A, Rinehart D, Mellander LJ, Tautenhahn R, Patti GJ, Spilker ME, Benton HP, Siuzdak G: Determining conserved metabolic biomarkers from a million database queries. Bioinformatics. 2015 Dec 1; 2015 Aug 13. PMID: 26275895

Fang M, Ivanisevic J, Benton HP, Johnson CH, Patti GJ, Hoang LT, Uritboonthai W, Kurczy ME, Siuzdak G: Thermal Degradation of Small Molecules: A Global Metabolomic Investigation. Anal Chem. 2015 Nov 3; 2015 Oct 14. PMID: 26434689

Johnson CH, Patti GJ, Courade JP, Shriver LP, Hoang LT, Manchester M, Siuzdak G: Alterations in Spinal Cord Metabolism during Treatment of Neuropathic Pain. J Neuroimmune Pharmacol. 2015 Sep; 2015 Aug 2. PMID: 26232265

Ivanisevic J, Elias D, Deguchi H, Averell PM, Kurczy M, Johnson CH, Tautenhahn R, Zhu Z, Watrous J, Jain M, Griffin J, Patti GJ, Siuzdak G: Arteriovenous Blood Metabolomics: A Readout of Intra-Tissue Metabostasis. Sci Rep. 2015 Aug 5; 2015 Aug 5. PMID: 26244428

Johnson CH, Dejea CM, Edler D, Hoang LT, Santidrian AF, Felding BH, Ivanisevic J, Cho K, Wick EC, Hechenbleikner EM, Uritboonthai W, Goetz L, Casero RA Jr, Pardoll DM, White JR, Patti GJ, Sears CL, Siuzdak G: Metabolism links bacterial biofilms and colon carcinogenesis. Cell Metab. 2015 Jun 2; 2015 May 7. PMID: 25959674

Benton HP, Ivanisevic J, Mahieu NG, Kurczy ME, Johnson CH, Franco L, Rinehart D, Valentine E, Gowda H, Ubhi BK, Tautenhahn R, Gieschen A, Fields MW, Patti GJ, Siuzdak G: Autonomous metabolomics for rapid metabolite identification in global profiling. Anal Chem. 2015 Jan 20; 2014 Dec 26. PMID: 25496351

Kurczy ME, Zhu ZJ, Ivanisevic J, Schuyler AM, Lalwani K, Santidrian AF, David JM, Giddabasappa A, Roberts AJ, Olivos HJ, O'Brien PJ, Franco L, Fields MW, Paris LP, Friedlander M, Johnson CH, Epstein AA, Gendelman HE, Wood MR, Felding BH, Patti GJ, Spilker ME, Siuzdak G: Comprehensive bioimaging with fluorinated nanoparticles using breathable liquids. Nat Commun. 2015 Jan 20; 2015 Jan 20. PMID: 25601659

Johnson CH, Ivanisevic J, Benton HP, Siuzdak G: Bioinformatics: the next frontier of metabolomics. Anal Chem. 2015 Jan 6; 2014 Nov 20. PMID: 25389922

Bi HC, Pan YZ, Qiu JX, Krausz KW, Li F, Johnson CH, Jiang CT, Gonzalez FJ, Yu AM: N-methylnicotinamide and nicotinamide N-methyltransferase are associated with microRNA-1291-altered pancreatic carcinoma cell metabolome and suppressed tumorigenesis. Carcinogenesis. 2014 Oct; 2014 Aug 12. PMID: 25115443

Gowda H, Ivanisevic J, Johnson CH, Kurczy ME, Benton HP, Rinehart D, Nguyen T, Ray J, Kuehl J, Arevalo B, Westenskow PD, Wang J, Arkin AP, Deutschbauer AM, Patti GJ, Siuzdak G: Interactive XCMS Online: simplifying advanced metabolomic data processing and subsequent statistical analyses. Anal Chem. 2014 Jul 15; 2014 Jun 25. PMID: 24934772

Johnson CH, Fisher TS, Hoang LT, Felding BH, Siuzdak G, O'Brien PJ: Luciferase does not Alter Metabolism in Cancer Cells. Metabolomics. 2014 Jun 1. PMID: 24791164

Rinehart D, Johnson CH, Nguyen T, Ivanisevic J, Benton HP, Lloyd J, Arkin AP, Deutschbauer AM, Patti GJ, Siuzdak G: Metabolomic data streaming for biology-dependent data acquisition. Nat Biotechnol. 2014 Jun. PMID: 24911492

Johnson CH, Manna SK, Krausz KW, Bonzo JA, Divelbiss RD, Hollingshead MG, Gonzalez FJ: Global metabolomics reveals urinary biomarkers of breast cancer in a mcf-7 xenograft mouse model. Metabolites. 2013 Aug 7; 2013 Aug 7. PMID: 24958144

Ivanisevic J, Zhu ZJ, Plate L, Tautenhahn R, Chen S, O'Brien PJ, Johnson CH, Marletta MA, Patti GJ, Siuzdak G: Toward 'omic scale metabolite profiling: a dual separation-mass spectrometry approach for coverage of lipid and central carbon metabolism. Anal Chem. 2013 Jul 16; 2013 Jul 3. PMID: 23781873

Bi H, Krausz KW, Manna SK, Li F, Johnson CH, Gonzalez FJ: Optimization of harvesting, extraction, and analytical protocols for UPLC-ESI-MS-based metabolomic analysis of adherent mammalian cancer cells. Anal Bioanal Chem. 2013 Jun; 2013 Apr 19. PMID: 23604415

Zhu ZJ, Schultz AW, Wang J, Johnson CH, Yannone SM, Patti GJ, Siuzdak G: Liquid chromatography quadrupole time-of-flight mass spectrometry characterization of metabolites guided by the METLIN database. Nat Protoc. 2013 Mar; 2013 Feb 7. PMID: 23391889

Johnson CH, Bonzo JA, Cheng J, Krausz KW, Kang DW, Luecke H, Idle JR, Gonzalez FJ: Cytochrome P450 regulation by α-tocopherol in Pxr-null and PXR-humanized mice. Drug Metab Dispos. 2013 Feb; 2012 Nov 16. PMID: 23160821

O'Brien PJ, Lee M, Spilker ME, Zhang CC, Yan Z, Nichols TC, Li W, Johnson CH, Patti GJ, Siuzdak G: Monitoring metabolic responses to chemotherapy in single cells and tumors using nanostructure-initiator mass spectrometry (NIMS) imaging. Cancer Metab. 2013 Jan 23; 2013 Jan 23. PMID: 24280026

Patti GJ, Tautenhahn R, Rinehart D, Cho K, Shriver LP, Manchester M, Nikolskiy I, Johnson CH, Mahieu NG, Siuzdak G: A view from above: cloud plots to visualize global metabolomic data. Anal Chem. 2013 Jan 15; 2012 Dec 26. PMID: 23206250

Kim JH, Yamaori S, Tanabe T, Johnson CH, Krausz KW, Kato S, Gonzalez FJ: Implication of intestinal VDR deficiency in inflammatory bowel disease. Biochim Biophys Acta. 2013 Jan; 2012 Oct 2. PMID: 23041070

Bi H, Li F, Krausz KW, Qu A, Johnson CH, Gonzalez FJ: Targeted Metabolomics of Serum Acylcarnitines Evaluates Hepatoprotective Effect of Wuzhi Tablet (Schisandra sphenanthera Extract) against Acute Acetaminophen Toxicity. Evid Based Complement Alternat Med. 2013; 2013 Feb 4. PMID: 23431354

Johnson CH, Slanař O, Krausz KW, Kang DW, Patterson AD, Kim JH, Luecke H, Gonzalez FJ, Idle JR: Novel metabolites and roles for α-tocopherol in humans and mice discovered by mass spectrometry-based metabolomics. Am J Clin Nutr. 2012 Oct; 2012 Sep 5. PMID: 22952181

Johnson CH, Patterson AD, Krausz KW, Kalinich JF, Tyburski JB, Kang DW, Luecke H, Gonzalez FJ, Blakely WF, Idle JR: Radiation metabolomics. 5. Identification of urinary biomarkers of ionizing radiation exposure in nonhuman primates by mass spectrometry-based metabolomics. Radiat Res. 2012 Oct; 2012 Sep 6. PMID: 22954391

Johnson CH, Gonzalez FJ: Challenges and opportunities of metabolomics. J Cell Physiol. 2012 Aug. PMID: 22034100

Johnson CH, Patterson AD, Idle JR, Gonzalez FJ: Xenobiotic metabolomics: major impact on the metabolome. Annu Rev Pharmacol Toxicol. 2012; 2011 Aug 3. PMID: 21819238

Johnson CH, Patterson AD, Krausz KW, Lanz C, Kang DW, Luecke H, Gonzalez FJ, Idle JR: Radiation metabolomics. 4. UPLC-ESI-QTOFMS-Based metabolomics for urinary biomarker discovery in gamma-irradiated rats. Radiat Res. 2011 Apr; 2011 Feb 10. PMID: 21309707

Iddon L, Richards SE, Johnson CH, Harding JR, Wilson ID, Nicholson JK, Lindon JC, Stachulski AV: Synthesis of a series of phenylacetic acid 1-β-O-acyl glucosides and comparison of their acyl migration and hydrolysis kinetics with the corresponding acyl glucuronides. Org Biomol Chem. 2011 Feb 7; 2010 Dec 8. PMID: 21152488

Karlsson ES, Johnson CH, Sarda S, Iddon L, Iqbal M, Meng X, Harding JR, Stachulski AV, Nicholson JK, Wilson ID, Lindon JC: High-performance liquid chromatography/mass spectrometric and proton nuclear magnetic resonance spectroscopic studies of the transacylation and hydrolysis of the acyl glucuronides of a series of phenylacetic acids in buffer and human plasma. Rapid Commun Mass Spectrom. 2010 Oct 30. PMID: 20872637

Berry NG, Iddon L, Iqbal M, Meng X, Jayapal P, Johnson CH, Nicholson JK, Lindon JC, Harding JR, Wilson ID, Stachulski AV: Synthesis, transacylation kinetics and computational chemistry of a set of arylacetic acid 1beta-O-acyl glucuronides. Org Biomol Chem. 2009 Jun 21; 2009 Apr 27. PMID: 19503925

Johnson CH, Wilson ID, Harding JR, Stachulski AV, Iddon L, Nicholson JK, Lindon JC: NMR spectroscopic studies on the in vitro acyl glucuronide migration kinetics of Ibuprofen ((+/-)-(R,S)-2-(4-isobutylphenyl) propanoic acid), its metabolites, and analogues. Anal Chem. 2007 Nov 15; 2007 Oct 18. PMID: 17944439

Dougan SK, Salas A, Rava P, Agyemang A, Kaser A, Morrison J, Khurana A, Kronenberg M, Johnson C, Exley M, Hussain MM, Blumberg RS: Microsomal triglyceride transfer protein lipidation and control of CD1d on antigen-presenting cells. J Exp Med. 2005 Aug 15; 2005 Aug 8. PMID: 16087713

Rava P, Athar H, Johnson C, Hussain MM: Transfer of cholesteryl esters and phospholipids as well as net deposition by microsomal triglyceride transfer protein. J Lipid Res. 2005 Aug; 2005 May 16. PMID: 15897609