SysMod: the ISCB community for data-driven computational modelling and multi-scale analysis of biological systems

A Dräger, T Helikar, M Barberis, M Birtwistle… - …, 2021 - academic.oup.com
Computational models of biological systems can exploit a broad range of rapidly developing
approaches, including novel experimental approaches, bioinformatics data analysis …

Multiscale modeling of biomedical, biological, and behavioral systems (Part 1)[Introduction to the special issue]

RJ White, GCY Peng, SS Demir - IEEE Engineering in Medicine …, 2009 - ieeexplore.ieee.org
Mathematical and computational modeling provide a natural infrastructure for systematically
bringing together the wealth of data and knowledge obtained from biological, physiological …

Big data need big theory too

PV Coveney, ER Dougherty… - … Transactions of the …, 2016 - royalsocietypublishing.org
The current interest in big data, machine learning and data analytics has generated the
widespread impression that such methods are capable of solving most problems without the …

Strategies for efficient numerical implementation of hybrid multi-scale agent-based models to describe biological systems

NA Cilfone, DE Kirschner, JJ Linderman - Cellular and molecular …, 2015 - Springer
Biologically related processes operate across multiple spatiotemporal scales. For
computational modeling methodologies to mimic this biological complexity, individual scale …

Lessons learned from quantitative dynamical modeling in systems biology

A Raue, M Schilling, J Bachmann, A Matteson… - PloS one, 2013 - journals.plos.org
Due to the high complexity of biological data it is difficult to disentangle cellular processes
relying only on intuitive interpretation of measurements. A Systems Biology approach that …

Bridging scales through multiscale modeling: a case study on protein kinase A

BW Boras, SP Hirakis, LW Votapka… - Frontiers in …, 2015 - frontiersin.org
The goal of multiscale modeling in biology is to use structurally based physico-chemical
models to integrate across temporal and spatial scales of biology and thereby improve …

A novel method to verify multilevel computational models of biological systems using multiscale spatio-temporal meta model checking

O Pârvu, D Gilbert - PloS one, 2016 - journals.plos.org
Insights gained from multilevel computational models of biological systems can be
translated into real-life applications only if the model correctness has been verified first. One …

Grand challenges in mathematical biology: Integrating multi-scale modeling and data

R Eftimie - Frontiers in Applied Mathematics and Statistics, 2022 - frontiersin.org
Despite the fact that mathematical applications to biology and medicine have been
mentioned since the eighteenth century [1][or even earlier, if we think of Fibonacci's example …

How to build a multiscale model in biology

S Bernard - Acta biotheoretica, 2013 - Springer
Biological processes span several scales in space, from the single molecules to organisms
and ecosystems. Multiscale modelling approaches in biology are useful to take into account …

Computational disease modeling–fact or fiction?

JN Tegnér, A Compte, C Auffray, G An… - BMC systems …, 2009 - Springer
Background Biomedical research is changing due to the rapid accumulation of experimental
data at an unprecedented scale, revealing increasing degrees of complexity of biological …