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

Scientific Reports
Marie Pier Scott-BoyerCorrado Priami

Abstract

The involvement of vitamins and other micronutrients in intermediary metabolism was elucidated in the mid 1900's at the level of individual biochemical reactions. Biochemical pathways remain the foundational knowledgebase for understanding how micronutrient adequacy modulates health in all life stages. Current daily recommended intakes were usually established on the basis of the association of a single nutrient to a single, most sensitive adverse effect and thus neglect interdependent and pleiotropic effects of micronutrients on biological systems. Hence, the understanding of the impact of overt or sub-clinical nutrient deficiencies on biological processes remains incomplete. Developing a more complete view of the role of micronutrients and their metabolic products in protein-mediated reactions is of importance. We thus integrated and represented cofactor-protein interaction data from multiple and diverse sources into a multi-layer network representation that links cofactors, cofactor-interacting proteins, biological processes, and diseases. Network representation of this information is a key feature of the present analysis and enables the integration of data from individual biochemical reactions and protein-protein interactio...Continue Reading

References

Nov 1, 1990·Age and Ageing·I N FerrierJ A Edwardson
Dec 11, 1999·Nucleic Acids Research·A Bairoch
Oct 30, 2001·Behavioural Brain Research·Y BenjaminiI Golani
Jan 15, 2003·BMC Bioinformatics·Gary D Bader, Christopher W V Hogue
May 6, 2003·The Journal of Nutrition·Bruce N Ames
Jan 22, 2004·Nature Reviews. Genetics·Albert-László Barabási, Zoltán N Oltvai
Nov 15, 2006·Proceedings of the National Academy of Sciences of the United States of America·Bruce N Ames
May 16, 2007·Proceedings of the National Academy of Sciences of the United States of America·Kwang-Il GohAlbert-László Barabási
Jul 5, 2008·The British Journal of Nutrition·Ben van OmmenSuzan Wopereis
Nov 8, 2008·Nucleic Acids Research·T S Keshava PrasadAkhilesh Pandey
Apr 10, 2009·Human Genetics·Mazda JenabSheila A Bingham
Apr 17, 2009·Bioinformatics·Claudia AndreiniJanet M Thornton
Apr 28, 2010·Mechanisms of Ageing and Development·Bruce N Ames
Aug 4, 2010·Bioinformatics·Julia D FischerJanet M Thornton
Nov 11, 2010·Methods in Molecular Biology·Michael KohlBettina Warscheid
Aug 30, 2011·Clinical Nutrition : Official Journal of the European Society of Parenteral and Enteral Nutrition·C BertiI Cetin
Mar 30, 2012·The Journal of Nutrition, Health & Aging·E FabianI Elmadfa
Apr 25, 2012·Annual Review of Nutrition·Susan T MayneBrenda Cartmel
Jun 14, 2012·The British Journal of Nutrition·Barbara TroeschPeter Weber
Nov 20, 2012·Nucleic Acids Research·UNKNOWN UniProt Consortium
Jan 29, 2013·Asia Pacific Journal of Clinical Nutrition·Pattanee Winichagoon
Oct 23, 2013·Alzheimer's & Dementia : the Journal of the Alzheimer's Association·Sofia Lopes da SilvaTheo Stijnen
Nov 15, 2013·Advances in Nutrition·Kevin B Comerford
Feb 18, 2014·Diabetic Medicine : a Journal of the British Diabetic Association·W L Lowe, J Karban
Mar 25, 2014·International Journal of Molecular Sciences·Mario J SoaresEmily K Calton
Jun 5, 2014·Nucleic Acids Research·Chun-Chi LiuXianghong Jasmine Zhou
Aug 1, 2014·Food and Nutrition Bulletin·Emma Tzioumis, Linda S Adair
Nov 2, 2014·Nucleic Acids Research·Kristian A GrayElspeth A Bruford
Jan 24, 2015·Science·Mathias UhlénFredrik Pontén
Feb 7, 2015·Biochimica Et Biophysica Acta·Jill O FussJohn A Tainer
Apr 23, 2015·FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology·Joyce C McCannBruce N Ames
Sep 9, 2015·Frontiers in Genetics·Esti Yeger-Lotem, Roded Sharan

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Citations

Feb 1, 2017·Genes & Nutrition·Jim KaputFabio Virgili
Feb 7, 2017·Breeding Science·Charfeddine GharsallahFaten Gorsane
Oct 4, 2017·Nutrition Reviews·Ben van OmmenSuzan Wopereis
Feb 6, 2018·Scientific Reports·Sébastien LacroixSofia Moco
Oct 17, 2018·Proceedings of the National Academy of Sciences of the United States of America·Bruce N Ames

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Datasets Mentioned

BETA
GSE30611

Methods Mentioned

BETA
RNAseq

Software Mentioned

igraph
Cytoscape
RISmed
clusterMaker
DAVID Bioinformatics Resources
R
R package bipartite

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