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Program Coordinator & Assistant Project Scientist

UC Davis Genome Center - Metabolomics
GBSF building room 1313
451 East Health Science Drive

Davis

California

95618

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Research Interest and projects

  • Exposome and causes of chronic diseases
  • Metabolic network's mapping, analysis, and visualization
  • Biological interpretation of metabolomics datasets
  • Pathway level integration of metabolomics and transcriptomics/proteomics datasets
  • Data analysis and Text mining

Education

2005-2010 PhD. University of Rajasthan, Jaipur, India
2003-2005 Master of Science in Biotechnology from University of Rajasthan, India.
1999-2002 Bachelor of Science in Biology from the Government college, Jaisalmer, India

Past Positions

  • Scientist- P2, International Agency for Research on Cancer (IARC), World Health Organization, Lyon, France (November 2012-August 2015).
  • Post-Doctoral Fellow, Metabolomics Fiehn Lab, UCDavis, USA (April 2012-Oct 2012)
  • Visiting Research Scientist,(2011) International Center for Genetic Engineering and Biotechnology (ICGEB), New Delhi, India
  • Research Specialist, (2008-2010) Metabolomics FiehnLab,UCDavis, USA
  • Visiting Graduate Student (2007-2008) Metabolomics FiehnLab,UCDavis, USA

Publications:

Google Scholar - https://scholar.google.com/citations?hl=en&user=gFL7ZyEAAAAJ&view_op=list_works&sortby=pubdate

  1. Barupal DK, Pinkerton KE, Hood C, Kind T, Fiehn O. Environmental tobacco smoke alters metabolic systems in adult rats. Chemical Research in Toxicology. 2016 Nov 9;29(11):1818-27.
  2. Guha N, Guyton KZ, Loomis D, Barupal DK. Prioritizing Chemicals for Risk Assessment Using Chemoinformatics: Examples from the IARC Monographs on Pesticides. Environmental health perspectives. 2016 May 10.
  3. Stepien, M; Duarte-Salles, T; Fedirko, V; Floegel, A; Barupal DK; Rinaldi, S; Achaintre, D; Assi, N; Tjonneland, A; Overvad, K; Bastide, N; Boutron-Ruault, MC; Severi, G; Kuhn, T; Kaaks, R; Aleksandrova, K; Boeing, H; Trichopoulou, A; Bamia, C; Lagiou, P; Saieva, C; Agnoli, C; Panico, S; Tumino, R; Naccarati, A; Bueno-de-Mesquita, HB; Peeters, PH; Weiderpass, E; Quiros, JR; Agudo, A; Sanchez, MJ; Dorronsoro, M; Gavrila, D; Barricarte, A; Ohlsson, B; Sjoberg, K; Werner, M; Sund, M; Wareham, N; Khaw, KT; Travis, RC; Schmidt, JA; Gunter, M; Cross, A; Vineis, P; Romieu, I; Scalbert, A; Jenab, M , Alteration of amino acid and biogenic amine metabolism in hepatobiliary cancers: Findings from a prospective cohort study , INTERNATIONAL JOURNAL OF CANCER , 2016 , PMID( 26238458 ), DOI 10.1002/ijc.29718
  4. Rothwell, JA; Urpi-Sarda, M; Boto-Ordonez, M; Llorach, R; Farran-Codina, A; Barupal DK; Neveu, V; Manach, C; Andres-Lacueva, C; Scalbert, A , Systematic analysis of the polyphenol metabolome using the Phenol-Explorer database , MOLECULAR NUTRITION & FOOD RESEARCH , 2016 , PMID( 26310602 ), DOI 10.1002/mnfr.201500435
  5. Edmands, WMB; Ferrari, P; Rothwell, JA; Rinaldi, S; Slimani, N; Barupal DK; Biessy, C; Jenab, M; Clavel-Chapelon, F; Fagherazzi, G; Boutron-Ruault, MC; Katzke, VA; Kuhn, T; Boeing, H; Trichopoulou, A; Lagiou, P; Trichopoulos, D; Palli, D; Grioni, S; Tumino, R; Vineis, P; Mattiello, A; Romieu, I; Scalbert, A , Polyphenol metabolome in human urine and its association with intake of polyphenol-rich foods across European countries , AMERICAN JOURNAL OF CLINICAL NUTRITION , 2015 , PMID( 26269369 ), DOI 10.3945/ajcn.114.101881
  6. Miyamoto, S; Taylor, SL; Barupal DK; Taguchi, A; Wohlgemuth, G; Wikoff, WR; Yoneda, KY; Gandara, DR; Hanash, SM; Kim, K; Fiehn, O , Systemic Metabolomic Changes in Blood Samples of Lung Cancer Patients Identified by Gas Chromatography Time-of-Flight Mass Spectrometry , METABOLITES , 2015 , PMID( 25859693 ), DOI 10.3390/metabo5020192
  7. Edmands, WMB; Barupal DK; Scalbert, A , MetMSLine: an automated and fully integrated pipeline for rapid processing of high-resolution LC-MS metabolomic datasets , BIOINFORMATICS , 2015 , PMID( 25348215 ), DOI 10.1093/bioinformatics/btu705
  8. Rappaport, SM; Barupal DK; Wishart, D; Vineis, P; Scalbert, A , The Blood Exposome and Its Role in Discovering Causes of Disease , ENVIRONMENTAL HEALTH PERSPECTIVES , 2014 , PMID( 24659601 ), DOI 10.1289/ehp.1308015
  9. Yang, DW; Zhang, YT; Barupal DK; Fan, XL; Gustafson, R; Guo, RB; Fiehn, O , Metabolomics of photobiological hydrogen production induced by CCCP in Chlamydomonas reinhardtii , INTERNATIONAL JOURNAL OF HYDROGEN ENERGY , 2014 , PMID( ), DOI
  10. Budczies, J; Brockmoller, SF; Muller, BM; Barupal DK; Richter-Ehrenstein, C; Kleine-Tebbe, A; Griffin, JL; Oresic, M; Dietel, M; Denkert, C; Fiehn, O , Comparative metabolomics of estrogen receptor positive and estrogen receptor negative breast cancer: alterations in glutamine and beta-alanine metabolism , JOURNAL OF PROTEOMICS , 2013 , PMID( 24125731 ), DOI 10.1016/j.jprot.2013.10.002
  11. Barupal DK; Lee, SJ; Karoly, ED; Adhya, S , Inactivation of Metabolic Genes Causes Short- and Long-Range dys-Regulation in Escherichia coli Metabolic Network , PLOS ONE , 2013 , PMID( 24363806 ), DOI 10.1371/journal.pone.0078360
  12. Ibanez, C; Simo, C; Barupal DK; Fiehn, O; Kivipelto, M; Cedazo-Minguez, A; Cifuentes, A , A new metabolomic workflow for early detection of Alzheimer's disease , JOURNAL OF CHROMATOGRAPHY A , 2013 , PMID( 23827464 ), DOI 10.1016/j.chroma.2013.06.005
  13. Perroud, B; Jafar-Nejad, P; Wikoff, WR; Gatchel, JR; Wang, L; Barupal DK; Crespo-Barreto, J; Fiehn, O; Zoghbi, HY; Kaddurah-Daouk, R , Pharmacometabolomic Signature of Ataxia SCA1 Mouse Model and Lithium Effects , PLOS ONE , 2013 , PMID( 23936457 ), DOI 10.1371/journal.pone.0070610
  14. Meissen, JK; Yuen, BTK; Kind, T; Riggs, JW; Barupal DK; Knoepfler, PS; Fiehn, O , Induced Pluripotent Stem Cells Show Metabolomic Differences to Embryonic Stem Cells in Polyunsaturated Phosphatidylcholines and Primary Metabolism , PLOS ONE , 2012 , PMID( 23077522 ), DOI 10.1371/journal.pone.0046770
  15. Lee, DY; Park, JJ; Barupal DK; Fiehn, O , System Response of Metabolic Networks in Chlamydomonas reinhardtii to Total Available Ammonium , MOLECULAR & CELLULAR PROTEOMICS , 2012 , PMID( 22787274 ), DOI 10.1074/mcp.M111.016733
  16. Barupal DK; Haldiya, PK; Wohlgemuth, G; Kind, T; Kothari, SL; Pinkerton, KE; Fiehn, O , MetaMapp: mapping and visualizing metabolomic data by integrating information from biochemical pathways and chemical and mass spectral similarity , BMC BIOINFORMATICS , 2012 , PMID( 22591066 ), DOI 10.1186/1471-2105-13-99
  17. Denkert, C; Bucher, E; Hilvo, M; Salek, R; Oresic, M; Griffin, J; Brockmoller, S; Klauschen, F; Loibl, S; Barupal DK; Budczies, J; Iljin, K; Nekljudova, V; Fiehn, O , Metabolomics of human breast cancer: new approaches for tumor typing and biomarker discovery , GENOME MEDICINE , 2012 , PMID( 22546809 ), DOI 10.1186/gm336
  18. Skogerson, K; Wohlgemuth, G; Barupal DK; Fiehn, O , The volatile compound BinBase mass spectral database , BMC BIOINFORMATICS , 2011 , PMID( 21816034 ), DOI 10.1186/1471-2105-12-321
  19. Fiehn, O; Barupal DK; Kind, T , Extending Biochemical Databases by Metabolomic Surveys , JOURNAL OF BIOLOGICAL CHEMISTRY , 2011 , PMID( 21566124 ), DOI 10.1074/jbc.R110.173617
  20. Barupal DK; Kind, T; Kothari, SL; Lee, DY; Fiehn, O , Hydrocarbon phenotyping of algal species using pyrolysis-gas chromatography mass spectrometry , BMC BIOTECHNOLOGY , 2010 , PMID( 20492649 ), DOI 10.1186/1472-6750-10-40
  21. Hartman, AL; Lough, DM; Barupal DK; Fiehn, O; Fishbein, T; Zasloff, M; Eisen, JA , Human gut microbiome adopts an alternative state following small bowel transplantation , PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA , 2009 , PMID( 19805153 ), DOI 10.1073/pnas.0904847106

Conference Abstracts

  • Dinesh Kumar Barupal, Tobias Kind, Oliver Fiehn, Mapping of Chemical and Biochemical Relationships of Mass Spectrometry-based Metabolomics Data. American Society of Mass spectrometry, Annual conference Denver, USA. 2008.
  • Dinesh Kumar Barupal, Tobias Kind, Carol Hood, Jesse Joad, Kent Pinkerton, Oliver Fiehn, Mapping metabolic alterations in rat lungs and blood plasma after exposure to environmental tobacco smoke. Metabolomics Society Annual Meeting, Boston,USA, 2008.
  • Dinesh Kumar Barupal, Oliver Fiehn, Visualization of identified and unknown compounds in metabolomic data sets of environmental tobacco smoke exposure in rats. American Society of Mass spectrometry, Annual conferenceDenver,USA.Philadelphia, 2009,USA
  • Dinesh Kumar Barupal, Gert Wohlgemuth, Oliver Fiehn, Biochemical Characterization Of Metabolomic Networks In Human From GC-TOF Mass Spectrometry Data. International Symposium on: Mass Spectrometry in Life Sciences. National Center for Biological Science, India 2009
  • Dinesh Kumar Barupal, Gert Wohlgemuth, Oliver Fiehn, Characterization of structural modularity of metabolic networks using mass spectrometry based metabolomics. Biomedical computing at Stanford, 10th Annual Symposium. Stanford University, USA, 2009.
  • Dinesh Kumar Barupal Gert Wohlgemuth, Oliver Fiehn. Functional and structural modeling of metabolomics datasets. Annual meeting of American Chemical Society. San Francisco, USA. 2010
  • Dinesh Kumar Barupal, Tobias Kind, Oliver Fiehn. Hydrocarbon phenotyping of algal species using pyrolysis gas chromatography and mass spectrometry. American society of mass spectrometry. Salt lake City, UT, USA. 2010
  • Dinesh Kumar Barupal, Jan Budczies, Gert Wohlgemuth, Carsten Denkert, Oliver Fiehn. Impact of hormonal receptors expression of breast cancer metabolic phenotypes. Annual meeting of metabolomics society. Amsterdam, Netherland. 2010.
  • Dinesh Kumar Barupal and Augustin Scalbert. “MetAnnoDB: A database of human metabolite annotations based on accurate mass and MS/MS spectra.” Metabolomics Society: Annual Meeting. Glasgow, Scotland. 2013
  • Dinesh Kumar Barupal, Augustin Scalbert and Mazda Zenab. “UHPLC-QTOF based metabolomics for discovering etiological biomarkers of liver cancers using serum samples from a large multinational prospective cohort.” International Conference on Mass Spectrometry, Geneva, Switzerland. 2014
  • Dinesh Kumar Barupal, Kathryn Guyton, Dana Loomis and Neela Guha. “A chemoinformatics approach for identifying priority agents for cancer hazard evaluations: The IARC Monographs and Pesticides.” World Cancer Congress, Melbourne, Australia. 2014