Jim Kaput

Jim Kaput

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Jim Kaput

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Lessons from application of data science strategies in nutritional research.

Authors:
Jim Kaput

Am J Clin Nutr 2020 Jan;111(1):4-5

Vydiant, Sacramento, CA, USA.

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http://dx.doi.org/10.1093/ajcn/nqz284DOI Listing
January 2020

Impact of multi-micronutrient supplementation on lipidemia of children and adolescents.

Clin Nutr 2019 Oct 18. Epub 2019 Oct 18.

Lipid Metabolism, Nestlé Research, EPFL Innovation Park, 1015, Switzerland; Institute of Clinical Chemistry, Inselspital, Bern University Hospital, Bern, Switzerland. Electronic address:

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http://dx.doi.org/10.1016/j.clnu.2019.09.010DOI Listing
October 2019

A proteomic signature that reflects pancreatic beta-cell function.

PLoS One 2018 30;13(8):e0202727. Epub 2018 Aug 30.

Institute of Food and Health, UCD School of Agriculture and Food Science, University College Dublin, Belfield, Ireland University College Dublin, Dublin, Republic of Ireland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0202727PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6117012PMC
February 2019

Clinical and Vitamin Response to a Short-Term Multi-Micronutrient Intervention in Brazilian Children and Teens: From Population Data to Interindividual Responses.

Mol Nutr Food Res 2018 03 22;62(6):e1700613. Epub 2018 Feb 22.

Department of Pediatrics, Faculty of Medicine, Nutrition and Metabolism, University of São Paulo.

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http://doi.wiley.com/10.1002/mnfr.201700613
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http://dx.doi.org/10.1002/mnfr.201700613DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6120145PMC
March 2018

Ancestors' dietary patterns and environments could drive positive selection in genes involved in micronutrient metabolism-the case of cofactor transporters.

Genes Nutr 2017 4;12:28. Epub 2017 Oct 4.

The Microsoft Research, University of Trento Centre for Computational Systems Biology (COSBI), piazza Manifattura 1, 38068 Rovereto, TN Italy.

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http://dx.doi.org/10.1186/s12263-017-0579-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5628472PMC
October 2017

Propelling the paradigm shift from reductionism to systems nutrition.

Genes Nutr 2017 25;12. Epub 2017 Jan 25.

CREA-NUT, Food & Nutrition Research Centre, Rome, Italy.

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http://dx.doi.org/10.1186/s12263-016-0549-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5264346PMC
January 2017

Systems-Level Nutrition Approaches to Define Phenotypes Resulting from Complex Gene-Environment Interactions.

Authors:
Jim Kaput

Nestle Nutr Inst Workshop Ser 2016 14;84:1-13. Epub 2016 Jan 14.

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http://dx.doi.org/10.1159/000436947DOI Listing
October 2016

Systems view of adipogenesis via novel omics-driven and tissue-specific activity scoring of network functional modules.

Sci Rep 2016 07 7;6:28851. Epub 2016 Jul 7.

The Microsoft Research - University of Trento Centre for Computational and Systems Biology, Piazza Manifattura 1, 38068 Rovereto, Italy.

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http://dx.doi.org/10.1038/srep28851DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4935943PMC
July 2016

A network analysis of cofactor-protein interactions for analyzing associations between human nutrition and diseases.

Sci Rep 2016 Jan 18;6:19633. Epub 2016 Jan 18.

The Microsoft Research - University of Trento Centre for Computational and Systems Biology (COSBI), Rovereto (TN), Italy.

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http://dx.doi.org/10.1038/srep19633DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4726080PMC
January 2016

Human nutrition, environment, and health.

Genes Nutr 2015 Sep;10(5):489

Nestlé Institute of Health Sciences, Lausanne, Switzerland,

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http://dx.doi.org/10.1007/s12263-015-0489-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4549339PMC
September 2015

The genomics of micronutrient requirements.

Genes Nutr 2015 Jul 19;10(4):466. Epub 2015 May 19.

Department of Pediatrics, Faculty of Medicine, Nutrition and Metabolism, University of São Paulo, Bandeirantes Avenue, HCFMRP Campus USP, 3900, Ribeirão Preto, SP, 14049-900, Brazil,

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http://link.springer.com/10.1007/s12263-015-0466-2
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http://dx.doi.org/10.1007/s12263-015-0466-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4434349PMC
July 2015

Enabling nutrient security and sustainability through systems research.

Genes Nutr 2015 May 16;10(3):462. Epub 2015 Apr 16.

Nestlé Institute of Health Sciences, Lausanne, Switzerland,

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http://dx.doi.org/10.1007/s12263-015-0462-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4398674PMC
May 2015

B vitamin polymorphisms and behavior: evidence of associations with neurodevelopment, depression, schizophrenia, bipolar disorder and cognitive decline.

Neurosci Biobehav Rev 2014 Nov 27;47:307-20. Epub 2014 Aug 27.

Nestle Institute of Health Science, Innovation Park, EPFL Campus, Lausanne 1015, Switzerland.

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http://dx.doi.org/10.1016/j.neubiorev.2014.08.006DOI Listing
November 2014

Translational genomics.

Appl Transl Genom 2014 Sep 10;3(3):43-7. Epub 2014 May 10.

Systems Nutrition and Health Unit, Nestlé Institute of Health Sciences (NIHS), Lausanne, Switzerland; Service Endocrinol. Diabetes, Metabol. Univ. Hospital Lausanne (CHUV), Univ. Lausanne, Switzerland.

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http://dx.doi.org/10.1016/j.atg.2014.05.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4886729PMC
September 2014

Metabolic fate of fructose in human adipocytes: a targeted C tracer fate association study.

Metabolomics 2015;11(3):529-544. Epub 2014 Aug 3.

Division of Systems Biology, National Center for Toxicological Research, FDA, 3900 NCTR Road, Jefferson, AR 72079 USA ; Systems Nutrition and Health, Nestle Institute of Health Sciences, Lausanne, Switzerland.

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http://dx.doi.org/10.1007/s11306-014-0716-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4419153PMC
August 2014

Gene expression variability in human hepatic drug metabolizing enzymes and transporters.

PLoS One 2013 23;8(4):e60368. Epub 2013 Apr 23.

Division of Systems Biology, National Center for Toxicological Research, Food and Drug Administration, Jefferson, Arkansas, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0060368PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3634068PMC
November 2013

Perspective: a systems approach to diabetes research.

Front Genet 2013 Oct 16;4:205. Epub 2013 Oct 16.

Nestlé Institute of Health Sciences SA Lausanne, Switzerland ; Faculty of Life Sciences, Ecole Polytechnique Fédérale Lausanne, Switzerland ; Faculty of Science, Aarhus University Aarhus, Denmark.

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http://journal.frontiersin.org/article/10.3389/fgene.2013.00
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http://dx.doi.org/10.3389/fgene.2013.00205DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3807566PMC
October 2013

Discovery-based nutritional systems biology: developing N-of-1 nutrigenomic research.

Int J Vitam Nutr Res 2012 Oct;82(5):333-41

Nestle Institute of Health Sciences, Lausanne, Switzerland.

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http://medcontent.metapress.com/index/814742151R7X3522.pdf
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http://econtent.hogrefe.com/doi/abs/10.1024/0300-9831/a00012
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http://dx.doi.org/10.1024/0300-9831/a000128DOI Listing
October 2012

Assessment of research models for testing gene-environment interactions.

Eur J Pharmacol 2011 Sep 27;668 Suppl 1:S108-16. Epub 2011 Jul 27.

Division of Personalized Nutrition and Medicine, NCTR/FDA, 3900 NCTR Rd., Jefferson, AR 72079, United States.

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http://dx.doi.org/10.1016/j.ejphar.2011.05.084DOI Listing
September 2011

Initiating a Human Variome Project Country Node.

Hum Mutat 2011 May 29;32(5):501-6. Epub 2011 Mar 29.

Department of Genetic Medicine, Faculty of Medicine, King Abdulaziz University, Jeddah, Saudi Arabia.

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http://dx.doi.org/10.1002/humu.21463DOI Listing
May 2011

Similarities and differences in the expression of drug-metabolizing enzymes between human hepatic cell lines and primary human hepatocytes.

Drug Metab Dispos 2011 Mar 13;39(3):528-38. Epub 2010 Dec 13.

Division of Biochemical Toxicology, National Center for Toxicological Research, Food and Drug Administration, Jefferson, AR 72079, USA.

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http://dx.doi.org/10.1124/dmd.110.035873DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3061558PMC
March 2011

Connecting the Human Variome Project to nutrigenomics.

Genes Nutr 2010 Dec 15;5(4):275-283. Epub 2010 Oct 15.

Genomic Disorders Research Centre, Level 2, Alan Gilbert Building, 161 Barry Street, Melbourne, VIC 3053 Australia.

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http://dx.doi.org/10.1007/s12263-010-0186-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2989367PMC
December 2010

Two new ArrayTrack libraries for personalized biomedical research.

BMC Bioinformatics 2010 Oct 7;11 Suppl 6:S6. Epub 2010 Oct 7.

Z-Tech Corporation, ICF International company at NCTR, National Center for Toxicological Research, 3900 NCTR Rd, Jefferson, AR 72079, USA.

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http://dx.doi.org/10.1186/1471-2105-11-S6-S6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3026380PMC
October 2010

Carbohydrate metabolic pathway genes associated with quantitative trait loci (QTL) for obesity and type 2 diabetes: identification by data mining.

Biotechnol J 2010 Sep;5(9):942-9

Division of Personalized Nutrition and Medicine, National Center for Toxicological Research, Jefferson, AR 72079, USA.

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http://dx.doi.org/10.1002/biot.201000067DOI Listing
September 2010

Challenging homeostasis to define biomarkers for nutrition related health.

Mol Nutr Food Res 2009 Jul;53(7):795-804

RIKILT-Institute of Food Safety, Wageningen University and Research Centre, Wageningen, The Netherlands.

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http://dx.doi.org/10.1002/mnfr.200800390DOI Listing
July 2009

A strategy for analyzing gene-nutrient interactions in type 2 diabetes.

J Diabetes Sci Technol 2009 Jul 1;3(4):710-21. Epub 2009 Jul 1.

Division of Personalized Nutrition and Medicine, Food and Drug Administration/National Center for Toxicological Research, Jefferson, Arkansas 72079, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2769961PMC
http://dx.doi.org/10.1177/193229680900300416DOI Listing
July 2009

Planning the human variome project: the Spain report.

Authors:
Jim Kaput Richard G H Cotton Lauren Hardman Michael Watson Aida I Al Aqeel Jumana Y Al-Aama Fahd Al-Mulla Santos Alonso Stefan Aretz Arleen D Auerbach Bharati Bapat Inge T Bernstein Jong Bhak Stacey L Bleoo Helmut Blöcker Steven E Brenner John Burn Mariona Bustamante Rita Calzone Anne Cambon-Thomsen Michele Cargill Paola Carrera Lawrence Cavedon Yoon Shin Cho Yeun-Jun Chung Mireille Claustres Garry Cutting Raymond Dalgleish Johan T den Dunnen Carlos Díaz Steven Dobrowolski M Rosário N dos Santos Rosemary Ekong Simon B Flanagan Paul Flicek Yoichi Furukawa Maurizio Genuardi Ho Ghang Maria V Golubenko Marc S Greenblatt Ada Hamosh John M Hancock Ross Hardison Terence M Harrison Robert Hoffmann Rania Horaitis Heather J Howard Carol Isaacson Barash Neskuts Izagirre Jongsun Jung Toshio Kojima Sandrine Laradi Yeon-Su Lee Jong-Young Lee Vera L Gil-da-Silva-Lopes Finlay A Macrae Donna Maglott Makia J Marafie Steven G E Marsh Yoichi Matsubara Ludwine M Messiaen Gabriela Möslein Mihai G Netea Melissa L Norton Peter J Oefner William S Oetting James C O'Leary Ana Maria Oller de Ramirez Mark H Paalman Jillian Parboosingh George P Patrinos Giuditta Perozzi Ian R Phillips Sue Povey Suyash Prasad Ming Qi David J Quin Rajkumar S Ramesar C Sue Richards Judith Savige Dagmar G Scheible Rodney J Scott Daniela Seminara Elizabeth A Shephard Rolf H Sijmons Timothy D Smith María-Jesús Sobrido Toshihiro Tanaka Sean V Tavtigian Graham R Taylor Jon Teague Thoralf Töpel Mollie Ullman-Cullere Joji Utsunomiya Henk J van Kranen Mauno Vihinen Elizabeth Webb Thomas K Weber Meredith Yeager Young I Yeom Seon-Hee Yim Hyang-Sook Yoo

Hum Mutat 2009 Apr;30(4):496-510

Division of Personalised Nutrition and Medicine, FDA/National Center for Toxicological Research, Jefferson, Arkansas 72079, USA.

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http://compbio.berkeley.edu/people/brenner/pubs/kaput-2009-h
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http://doi.wiley.com/10.1002/humu.20972
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http://dx.doi.org/10.1002/humu.20972DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5879779PMC
April 2009

Metabolomics: a tool for personalizing medicine?

Per Med 2008 Sep;5(5):495-504

US FDA, Division of Systems Toxicology, National Center for Toxicological Research, Jefferson, AR 72079-9502, USA.

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http://dx.doi.org/10.2217/17410541.5.5.495DOI Listing
September 2008

Assessing batch effects of genotype calling algorithm BRLMM for the Affymetrix GeneChip Human Mapping 500 K array set using 270 HapMap samples.

BMC Bioinformatics 2008 Aug 12;9 Suppl 9:S17. Epub 2008 Aug 12.

Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR 72079, USA.

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http://bmcbioinformatics.biomedcentral.com/articles/10.1186/
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http://dx.doi.org/10.1186/1471-2105-9-S9-S17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2537568PMC
August 2008

Nutrigenomics research for personalized nutrition and medicine.

Authors:
Jim Kaput

Curr Opin Biotechnol 2008 Apr 1;19(2):110-20. Epub 2008 Apr 1.

Division of Personalized Nutrition and Medicine, FDA/National Center for Toxicological Research, 3900 NCTR Road, Jefferson, AR 72079, USA.

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http://dx.doi.org/10.1016/j.copbio.2008.02.005DOI Listing
April 2008

Developing the promise of nutrigenomics through complete science and international collaborations.

Authors:
Jim Kaput

Forum Nutr 2007 ;60:209-223

Laboratory of Nutrigenomic Medicine, University of Illinois, Chicago, Ill., USA.

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https://www.karger.com/Article/FullText/107197
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http://dx.doi.org/10.1159/000107197DOI Listing
October 2007

Nutrition in the genomics era: cardiovascular disease risk and the Mediterranean diet.

Mol Nutr Food Res 2007 Oct;51(10):1293-9

Nutrition and Genomics Laboratory, USDA Human Nutrition Research Center on Aging at Tufts University, Boston, MA 02111, USA.

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http://doi.wiley.com/10.1002/mnfr.200700041
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http://dx.doi.org/10.1002/mnfr.200700041DOI Listing
October 2007

Complexity of type 2 diabetes mellitus data sets emerging from nutrigenomic research: a case for dimensionality reduction?

Mutat Res 2007 Sep 5;622(1-2):19-32. Epub 2007 May 5.

Center of Excellence in Nutritional Genomics, University of California at Davis, Davis, CA 95616, USA.

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http://dx.doi.org/10.1016/j.mrfmmm.2007.02.033DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1994901PMC
September 2007

Nutrigenomics--2006 update.

Authors:
Jim Kaput

Clin Chem Lab Med 2007 ;45(3):279-87

Center of Excellence in Nutritional Genomics, University of California, Davis, CA, USA.

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https://www.degruyter.com/view/j/cclm.2007.45.issue-3/cclm.2
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http://dx.doi.org/10.1515/CCLM.2007.057DOI Listing
July 2007

Nutrigenomics: concepts and applications to pharmacogenomics and clinical medicine.

Pharmacogenomics 2007 Apr;8(4):369-90

Department of Surgery, University of Illinois Chicago, 909 South Wolcott Street MC 958, Chicago, IL 60612, USA.

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http://dx.doi.org/10.2217/14622416.8.4.369DOI Listing
April 2007

Application of nutrigenomic concepts to Type 2 diabetes mellitus.

Nutr Metab Cardiovasc Dis 2007 Feb 1;17(2):89-103. Epub 2007 Feb 1.

Laboratory of Nutrigenomic Medicine, Department of Surgery, University of Illinois Chicago, 840 South Wood Street MC 958, Chicago, IL 60612, USA.

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http://dx.doi.org/10.1016/j.numecd.2006.11.006DOI Listing
February 2007

Nutrient selection through nutrigenomic approaches.

Authors:
Jim Kaput

Am J Physiol Regul Integr Comp Physiol 2007 Jan;292(1):R204-6

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http://dx.doi.org/10.1152/ajpregu.00658.2006DOI Listing
January 2007

Decoding the pyramid: a systems-biological approach to nutrigenomics.

Authors:
Jim Kaput

Ann N Y Acad Sci 2005 Dec;1055:64-79

Laboratory of High Speed Computing and Informatics, NCMHD Center of Excellence in Nutritional Genomics, University of California, Davis, CA 95616, USA.

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http://dx.doi.org/10.1196/annals.1323.011DOI Listing
December 2005

The case for strategic international alliances to harness nutritional genomics for public and personal health.

Br J Nutr 2005 Nov;94(5):623-32

Center of Excellence in Nutritional Genomics, University of California, Davis, CA 95616, USA.

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http://repositorio.uchile.cl/bitstream/handle/2250/123828/Ka
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http://dx.doi.org/10.1079/bjn20051585DOI Listing
November 2005

Diet-disease gene interactions.

Authors:
Jim Kaput

Nutrition 2004 Jan;20(1):26-31

NutraGenomics, Chicago, Illinois 60612, USA.

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http://dx.doi.org/10.1016/j.nut.2003.09.005DOI Listing
January 2004

Nutritional genomics: the next frontier in the postgenomic era.

Physiol Genomics 2004 Jan 15;16(2):166-77. Epub 2004 Jan 15.

Laboratory for High Performance Computing and Informatics, Section of Molecular and Cellular Biology, University of California at Davis, Davis, California 95616, USA.

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http://www.physiology.org/doi/10.1152/physiolgenomics.00107.
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http://dx.doi.org/10.1152/physiolgenomics.00107.2003DOI Listing
January 2004