Multiscale Computational Models of Complex Biological Systems

被引:145
|
作者
Walpole, Joseph [1 ]
Papin, Jason A. [1 ]
Peirce, Shayn M. [1 ]
机构
[1] Univ Virginia, Dept Biomed Engn, Charlottesville, VA 22908 USA
关键词
data integration; model validation; systems biology; bioinformatics; biochemical networks; model design; METABOLIC NETWORK RECONSTRUCTION; AGENT-BASED SIMULATION; CELL; ANGIOGENESIS; GROWTH; DYNAMICS; VEGF; ELECTROPHYSIOLOGY; CONTRACTION; HYPOTHESES;
D O I
10.1146/annurev-bioeng-071811-150104
中图分类号
R318 [生物医学工程];
学科分类号
0831 ;
摘要
Integration of data across spatial, temporal, and functional scales is a primary focus of biomedical engineering efforts. The advent of powerful computing platforms, coupled with quantitative data from high-throughput experimental methodologies, has allowed multiscale modeling to expand as a means to more comprehensively investigate biological phenomena in experimentally relevant ways. This review aims to highlight recently published multiscale models of biological systems, using their successes to propose the best practices for future model development. We demonstrate that coupling continuous and discrete systems best captures biological information across spatial scales by selecting modeling techniques that are suited to the task. Further, we suggest how to leverage these multiscale models to gain insight into biological systems using quantitative biomedical engineering methods to analyze data in nonintuitive ways. These topics are discussed with a focus on the future of the field, current challenges encountered, and opportunities yet to be realized.
引用
收藏
页码:137 / 154
页数:18
相关论文
共 50 条
  • [1] Multiscale models for biological systems
    Martins, M. L.
    Ferreira, S. C., Jr.
    Vilela, M. J.
    [J]. CURRENT OPINION IN COLLOID & INTERFACE SCIENCE, 2010, 15 (1-2) : 18 - 23
  • [2] BioModME for building and simulating dynamic computational models of complex biological systems
    Womack, Justin A.
    Shah, Viren
    Audi, Said H.
    Terhune, Scott S.
    Dash, Ranjan K.
    [J]. BIOINFORMATICS ADVANCES, 2024, 4 (01):
  • [3] Interplay and multiscale modeling of complex biological systems
    Bianca, Carlo
    [J]. AIMS BIOPHYSICS, 2022, 9 (01): : 56 - 60
  • [4] Predictive Computational Models Of Complex Biological Systems: Antiarrhythmics And Cardiac Tissue Dynamics
    Clancy, Colleen E.
    [J]. BIOPHYSICAL JOURNAL, 2009, 96 (03) : 214A - 215A
  • [5] Multifidelity Analysis for Predicting Rare Events in Stochastic Computational Models of Complex Biological Systems
    Pienaar, Elsje
    [J]. BIOMEDICAL ENGINEERING AND COMPUTATIONAL BIOLOGY, 2018, 9
  • [6] Mathematical and Computational Modeling in Complex Biological Systems
    Ji, Zhiwei
    Yan, Ke
    Li, Wenyang
    Hu, Haigen
    Zhu, Xiaoliang
    [J]. BIOMED RESEARCH INTERNATIONAL, 2017, 2017
  • [7] Multiscale computational models in physical systems biology of intracellular trafficking
    Tourdot, Richard W.
    Bradley, Ryan P.
    Ramakrishnan, Natesan
    Radhakrishnan, Ravi
    [J]. IET SYSTEMS BIOLOGY, 2014, 8 (05) : 198 - 213
  • [8] Simulation of intelligent computational models in biological systems
    Wu, Qing-Xiang
    Mcginnity, Martin
    Maguire, Liam
    Belatreche, Ammar
    Glackin, Brendan
    [J]. PROCEEDINGS OF 2007 INTERNATIONAL CONFERENCE ON MACHINE LEARNING AND CYBERNETICS, VOLS 1-7, 2007, : 1974 - 1978
  • [9] Multiscale mechanobiology: computational models for integrating molecules to multicellular systems
    Mak, Michael
    Kim, Taeyoon
    Zaman, Muhammad H.
    Kamm, Roger D.
    [J]. INTEGRATIVE BIOLOGY, 2015, 7 (10) : 1093 - 1108
  • [10] Multiscale computational models of cancer
    Warner, Helen, V
    Sivakumar, Nikita
    Peirce, Shayn M.
    Lazzara, Matthew J.
    [J]. CURRENT OPINION IN BIOMEDICAL ENGINEERING, 2019, 11 : 137 - 144