Literature DB >> 25445734

The inverse problem in mathematical biology.

Gilles Clermont1, Sven Zenker2.   

Abstract

Biological systems present particular challengers to model for the purposes of formulating predictions of generating biological insight. These systems are typically multi-scale, complex, and empirical observations are often sparse and subject to variability and uncertainty. This manuscript will review some of these specific challenges and introduce current methods used by modelers to construct meaningful solutions, in the context of preserving biological relevance. Opportunities to expand these methods are also discussed.
Copyright © 2014 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  Biological systems; Ensemble models; Inverse problem; Parameter estimation

Mesh:

Year:  2014        PMID: 25445734      PMCID: PMC6657349          DOI: 10.1016/j.mbs.2014.09.001

Source DB:  PubMed          Journal:  Math Biosci        ISSN: 0025-5564            Impact factor:   2.144


  25 in total

1.  Global identifiability of nonlinear models of biological systems.

Authors:  S Audoly; G Bellu; L D'Angiò; M P Saccomani; C Cobelli
Journal:  IEEE Trans Biomed Eng       Date:  2001-01       Impact factor: 4.538

2.  Parameter estimation in biochemical pathways: a comparison of global optimization methods.

Authors:  Carmen G Moles; Pedro Mendes; Julio R Banga
Journal:  Genome Res       Date:  2003-10-14       Impact factor: 9.043

Review 3.  Non-linear mixed effects modeling - from methodology and software development to driving implementation in drug development science.

Authors:  Goonaseelan Colin Pillai; France Mentré; Jean-Louis Steimer
Journal:  J Pharmacokinet Pharmacodyn       Date:  2005-11-07       Impact factor: 2.745

4.  The acute inflammatory response in diverse shock states.

Authors:  Carson C Chow; Gilles Clermont; Rukmini Kumar; Claudio Lagoa; Zacharia Tawadrous; David Gallo; Binnie Betten; John Bartels; Gregory Constantine; Mitchell P Fink; Timothy R Billiar; Yoram Vodovotz
Journal:  Shock       Date:  2005-07       Impact factor: 3.454

5.  In silico and in vivo approach to elucidate the inflammatory complexity of CD14-deficient mice.

Authors:  Jose M Prince; Ryan M Levy; John Bartels; Arie Baratt; John M Kane; Claudio Lagoa; Jonathan Rubin; Judy Day; Joyce Wei; Mitchell P Fink; Sanna M Goyert; Gilles Clermont; Timothy R Billiar; Yoram Vodovotz
Journal:  Mol Med       Date:  2006 Apr-Jun       Impact factor: 6.354

6.  Evidence-based modeling of critical illness: an initial consensus from the Society for Complexity in Acute Illness.

Authors:  Yoram Vodovotz; Gilles Clermont; C Anthony Hunt; Rolf Lefering; John Bartels; Ruediger Seydel; John Hotchkiss; Shlomo Ta'asan; Edmund Neugebauer; Gary An
Journal:  J Crit Care       Date:  2007-03       Impact factor: 3.425

7.  DAISY: a new software tool to test global identifiability of biological and physiological systems.

Authors:  Giuseppina Bellu; Maria Pia Saccomani; Stefania Audoly; Leontina D'Angiò
Journal:  Comput Methods Programs Biomed       Date:  2007-08-20       Impact factor: 5.428

8.  A dynamical model of human immune response to influenza A virus infection.

Authors:  Baris Hancioglu; David Swigon; Gilles Clermont
Journal:  J Theor Biol       Date:  2006-12-19       Impact factor: 2.691

9.  In silico design of clinical trials: a method coming of age.

Authors:  Gilles Clermont; John Bartels; Rukmini Kumar; Greg Constantine; Yoram Vodovotz; Carson Chow
Journal:  Crit Care Med       Date:  2004-10       Impact factor: 7.598

10.  Understanding the inflammatory cytokine response in pneumonia and sepsis: results of the Genetic and Inflammatory Markers of Sepsis (GenIMS) Study.

Authors:  John A Kellum; Lan Kong; Mitchell P Fink; Lisa A Weissfeld; Donald M Yealy; Michael R Pinsky; Jonathan Fine; Alexander Krichevsky; Russell L Delude; Derek C Angus
Journal:  Arch Intern Med       Date:  2007 Aug 13-27
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  8 in total

Review 1.  The best models of metabolism.

Authors:  Eberhard O Voit
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2017-05-19

2.  Nonlinear model-based cardiac arrhythmia diagnosis using the optimization-based inverse problem solution.

Authors:  Maryam Gholami; Mahsa Maleki; Saeed Amirkhani; Ali Chaibakhsh
Journal:  Biomed Eng Lett       Date:  2022-03-07

3.  Time-continuous and time-discrete SIR models revisited: theory and applications.

Authors:  Benjamin Wacker; Jan Schlüter
Journal:  Adv Differ Equ       Date:  2020-10-07

4.  Robust and efficient parameter estimation in dynamic models of biological systems.

Authors:  Attila Gábor; Julio R Banga
Journal:  BMC Syst Biol       Date:  2015-10-29

5.  Model-Based Quantification of Left Ventricular Diastolic Function in Critically Ill Patients with Atrial Fibrillation from Routine Data: A Feasibility Study.

Authors:  Nicholas Kiefer; Maximilian J Oremek; Andreas Hoeft; Sven Zenker
Journal:  Comput Math Methods Med       Date:  2019-05-16       Impact factor: 2.238

6.  Characterizing the type 2 diabetes mellitus epidemic in Jordan up to 2050.

Authors:  Susanne F Awad; Peijue Huangfu; Soha R Dargham; Kamel Ajlouni; Anwar Batieha; Yousef S Khader; Julia A Critchley; Laith J Abu-Raddad
Journal:  Sci Rep       Date:  2020-12-03       Impact factor: 4.379

7.  A dynamically structured matrix population model for insect life histories observed under variable environmental conditions.

Authors:  Kamil Erguler; Jacob Mendel; Dušan Veljko Petrić; Mina Petrić; Mihaela Kavran; Murat Can Demirok; Filiz Gunay; Pantelis Georgiades; Bulent Alten; Jos Lelieveld
Journal:  Sci Rep       Date:  2022-07-08       Impact factor: 4.996

8.  A dynamic model of lignin biosynthesis in Brachypodium distachyon.

Authors:  Mojdeh Faraji; Luis L Fonseca; Luis Escamilla-Treviño; Jaime Barros-Rios; Nancy L Engle; Zamin K Yang; Timothy J Tschaplinski; Richard A Dixon; Eberhard O Voit
Journal:  Biotechnol Biofuels       Date:  2018-09-19       Impact factor: 6.040

  8 in total

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