Literature DB >> 26046598

Information content in data sets for a nucleated-polymerization model.

H T Banks1, Marie Doumic, Carola Kruse, Stephanie Prigent, Human Rezaei.   

Abstract

We illustrate the use of statistical tools (asymptotic theories of standard error quantification using appropriate statistical models, bootstrapping, and model comparison techniques) in addition to sensitivity analysis that may be employed to determine the information content in data sets. We do this in the context of recent models [S. Prigent, A. Ballesta, F. Charles, N. Lenuzza, P. Gabriel, L.M. Tine, H. Rezaei, and M. Doumic, An efficient kinetic model for assemblies of amyloid fibrils and its application to polyglutamine aggregation, PLoS ONE 7 (2012), e43273. doi:10.1371/journal.pone.0043273.] for nucleated polymerization in proteins, about which very little is known regarding the underlying mechanisms; thus, the methodology we develop here may be of great help to experimentalists. We conclude that the investigated data sets will support with reasonable levels of uncertainty only the estimation of the parameters related to the early steps of the aggregation process.

Entities:  

Keywords:  49Q12; 62P10; 64B10; 65M32; information content; inverse problems; polyglutamine and aggregation modelling; sensitivity; uncertainty quantification

Mesh:

Substances:

Year:  2015        PMID: 26046598      PMCID: PMC4493483          DOI: 10.1080/17513758.2015.1050465

Source DB:  PubMed          Journal:  J Biol Dyn        ISSN: 1751-3758            Impact factor:   2.179


  12 in total

1.  The kinetics of nucleated polymerizations at high concentrations: amyloid fibril formation near and above the "supercritical concentration".

Authors:  Evan T Powers; David L Powers
Journal:  Biophys J       Date:  2006-04-07       Impact factor: 4.033

2.  An imaging and systems modeling approach to fibril breakage enables prediction of amyloid behavior.

Authors:  Wei-Feng Xue; Sheena E Radford
Journal:  Biophys J       Date:  2013-12-17       Impact factor: 4.033

3.  Estimation and prediction with HIV-treatment interruption data.

Authors:  B M Adams; H T Banks; M Davidian; E S Rosenberg
Journal:  Bull Math Biol       Date:  2007-01-09       Impact factor: 1.758

4.  Model Comparison Tests to Determine Data Information Content.

Authors:  H T Banks; J E Banks; Kathryn Link; J A Rosenheim; Chelsea Ross; K A Tillman
Journal:  Appl Math Lett       Date:  2015-01-01       Impact factor: 4.055

5.  Uncertainty quantification in modeling HIV viral mechanics.

Authors:  H T Banks; Robert Baraldi; Karissa Cross; Kevin Flores; Christina McChesney; Laura Poag; Emma Thorpe
Journal:  Math Biosci Eng       Date:  2015-10       Impact factor: 2.080

6.  Modelling HIV immune response and validation with clinical data.

Authors:  H T Banks; M Davidian; Shuhua Hu; Grace M Kepler; E S Rosenberg
Journal:  J Biol Dyn       Date:  2008-10       Impact factor: 2.179

7.  Prion dynamics with size dependency-strain phenomena.

Authors:  V Calvez; N Lenuzza; M Doumic; J-P Deslys; F Mouthon; B Perthame
Journal:  J Biol Dyn       Date:  2010-01       Impact factor: 2.179

8.  Systematic analysis of nucleation-dependent polymerization reveals new insights into the mechanism of amyloid self-assembly.

Authors:  Wei-Feng Xue; Steve W Homans; Sheena E Radford
Journal:  Proc Natl Acad Sci U S A       Date:  2008-06-25       Impact factor: 11.205

9.  Optimal Design of Non-equilibrium Experiments for Genetic Network Interrogation.

Authors:  Kaska Adoteye; H T Banks; Kevin B Flores
Journal:  Appl Math Lett       Date:  2015-02-01       Impact factor: 4.055

10.  Amyloid fibril length distribution quantified by atomic force microscopy single-particle image analysis.

Authors:  Wei-Feng Xue; Steve W Homans; Sheena E Radford
Journal:  Protein Eng Des Sel       Date:  2009-07-06       Impact factor: 1.650

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  1 in total

1.  Modeling Zika Virus Transmission Dynamics: Parameter Estimates, Disease Characteristics, and Prevention.

Authors:  Munsur Rahman; Kidist Bekele-Maxwell; LeAnna L Cates; H T Banks; Naveen K Vaidya
Journal:  Sci Rep       Date:  2019-07-22       Impact factor: 4.379

  1 in total

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