Large-scale computational models of liver metabolism: How far from the clinics?

Hepatology : Official Journal of the American Association for the Study of Liver Diseases
Tanja CvitanovićDamjana Rozman

Abstract

Understanding the dynamics of human liver metabolism is fundamental for effective diagnosis and treatment of liver diseases. This knowledge can be obtained with systems biology/medicine approaches that account for the complexity of hepatic responses and their systemic consequences in other organs. Computational modeling can reveal hidden principles of the system by classification of individual components, analyzing their interactions and simulating the effects that are difficult to investigate experimentally. Herein, we review the state-of-the-art computational models that describe liver dynamics from metabolic, gene regulatory, and signal transduction perspectives. We focus especially on large-scale liver models described either by genome scale metabolic networks or an object-oriented approach. We also discuss the benefits and limitations of each modeling approach and their value for clinical applications in diagnosis, therapy, and prevention of liver diseases as well as precision medicine in hepatology. (Hepatology 2017;66:1323-1334).

References

Mar 26, 2002·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Hidde de Jong
Oct 7, 2003·Annual Review of Biomedical Engineering·Mads KaernJ J Collins
Oct 20, 2004·Metabolic Engineering·Mats AkessonJens Nielsen
Jan 18, 2005·Nature Reviews. Molecular Cell Biology·Jason A PapinShankar Subramaniam
Feb 26, 2005·Bioinformatics·Daniel Shegogue, W Jim Zheng
Apr 5, 2005·Toxicologic Pathology·David E MalarkeyRobert R Maronpot
Sep 22, 2005·Hepatology : Official Journal of the American Association for the Study of Liver Diseases·Alan S PerelsonStefan Zeuzem
Feb 3, 2007·Proceedings of the National Academy of Sciences of the United States of America·Natalie C DuarteBernhard Ø Palsson
Jun 23, 2007·BMC Bioinformatics·Vinay Satish KumarCostas D Maranas
May 17, 2008·PLoS Computational Biology·Scott A Becker, Bernhard O Palsson
Aug 20, 2008·Nature Biotechnology·Tomer ShlomiEytan Ruppin
Apr 3, 2009·The New England Journal of Medicine·Eric Van CutsemPhilippe Rougier
Sep 18, 2009·Nature·David L ThomasMary Carrington
Jan 9, 2010·Nature Protocols·Ines Thiele, Bernhard Ø Palsson
Mar 10, 2010·Nature Biotechnology·Jeffrey D OrthBernhard Ø Palsson
Apr 16, 2010·Nature·UNKNOWN International Cancer Genome ConsortiumHuanming Yang
Apr 28, 2010·PLoS Computational Biology·John Wambaugh, Imran Shah
May 21, 2010·Proceedings of the National Academy of Sciences of the United States of America·Stefan HoehmeDirk Drasdo
Sep 9, 2010·Molecular Systems Biology·Christoph GilleHerrmann-Georg Holzhütter
Oct 20, 2010·PLoS Computational Biology·Roger L ChangBernhard Ø Palsson
Oct 21, 2010·Molecular Systems Biology·Aarash BordbarNeema Jamshidi
Nov 13, 2010·IEEE/ACM Transactions on Computational Biology and Bioinformatics·Rogier J P van BerloMarcel J T Reinders
Nov 18, 2010·Bioinformatics·Hadas ZurTomer Shlomi
Nov 26, 2010·Nature Biotechnology·Nathan E LewisBernhard Ø Palsson
Dec 7, 2010·BMC Systems Biology·Glen E P Ropella, C Anthony Hunt
Jun 8, 2011·Frontiers in Physiology·Robert L HesterThomas G Coleman
Jun 23, 2011·Molecular Systems Biology·Ori FolgerTomer Shlomi
Jun 28, 2011·European Journal of Pharmaceutical Sciences : Official Journal of the European Federation for Pharmaceutical Sciences·Alexey KolodkinHans V Westerhoff
Sep 3, 2011·Nature Protocols·Jan SchellenbergerBernhard Ø Palsson
Oct 14, 2011·The New England Journal of Medicine·Dennis SlamonUNKNOWN Breast Cancer International Research Group
Oct 14, 2011·Methods in Molecular Biology·Gino J E Baart, Dirk E Martens
Feb 15, 2012·Hepatology : Official Journal of the American Association for the Study of Liver Diseases·Christopher H RemienNorman L Sussman
Feb 24, 2012·The New England Journal of Medicine·Jeffrey A SosmanAntoni Ribas
Mar 1, 2012·Nature Reviews. Microbiology·Nathan E LewisBernhard O Palsson
Jun 28, 2012·Molecular Systems Biology·Aarash BordbarBernhard O Palsson
Aug 30, 2012·BMC Systems Biology·Anja KarlstädtHermann-Georg Holzhütter
Dec 14, 2012·BMC Systems Biology·Yuliang WangNathan D Price
Dec 19, 2012·Frontiers in Physiology·Sudin BhattacharyaMelvin E Andersen
Mar 21, 2013·Molecular Systems Biology·Adil MardinogluJens Nielsen

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Citations

Dec 19, 2017·Frontiers in Physiology·Bruno ChristNavina Waschinsky
Jul 5, 2018·Expert Opinion on Drug Metabolism & Toxicology·Cene SkubicDamjana Rozman
Dec 9, 2017·Briefings in Bioinformatics·Massimiliano ZaninHarald H H W Schmidt
Jun 6, 2020·Biotechnology and Bioengineering·Mohammad R NikmaneshiLance L Munn
May 22, 2020·World Journal of Gastrointestinal Pathophysiology·Guglielmo M Trovato
May 1, 2018·Frontiers in Physiology·Tanja Cvitanović TomašDamjana Rozman
Oct 26, 2018·BMC Systems Biology·Farrah Sadre-MarandiH Frederik Nijhout
Mar 5, 2021·Network and Systems Medicine·Massimiliano ZaninHarald H H W Schmidt
Jul 10, 2021·Archives of Toxicology·Luise HochmuthMadlen Matz-Soja

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