Literature DB >> 17942476

Resources, standards and tools for systems biology.

Christoph Wierling1, Ralf Herwig, Hans Lehrach.   

Abstract

Modelling and simulation techniques are valuable tools for the understanding of complex biological systems. The design of a computer model necessarily has many diverse inputs, such as information on the model topology, reaction kinetics and experimental data, derived either from the literature, databases or direct experimental investigation. In this review, we describe different data resources, standards and modelling and simulation tools that are relevant to integrative systems biology.

Mesh:

Year:  2007        PMID: 17942476     DOI: 10.1093/bfgp/elm027

Source DB:  PubMed          Journal:  Brief Funct Genomic Proteomic        ISSN: 1473-9550


  21 in total

Review 1.  Software for systems biology: from tools to integrated platforms.

Authors:  Samik Ghosh; Yukiko Matsuoka; Yoshiyuki Asai; Kun-Yi Hsin; Hiroaki Kitano
Journal:  Nat Rev Genet       Date:  2011-11-03       Impact factor: 53.242

Review 2.  Designing and encoding models for synthetic biology.

Authors:  Lukas Endler; Nicolas Rodriguez; Nick Juty; Vijayalakshmi Chelliah; Camille Laibe; Chen Li; Nicolas Le Novère
Journal:  J R Soc Interface       Date:  2009-04-01       Impact factor: 4.118

3.  Reverse engineering of gene regulatory networks: a comparative study.

Authors:  Hendrik Hache; Hans Lehrach; Ralf Herwig
Journal:  EURASIP J Bioinform Syst Biol       Date:  2009-06-11

Review 4.  Molecular networks in drug discovery.

Authors:  John Kenneth Morrow; Longzhang Tian; Shuxing Zhang
Journal:  Crit Rev Biomed Eng       Date:  2010

5.  Systems medicine: the future of medical genomics and healthcare.

Authors:  Charles Auffray; Zhu Chen; Leroy Hood
Journal:  Genome Med       Date:  2009-01-20       Impact factor: 11.117

Review 6.  Hierarchical approaches for systems modeling in cardiac development.

Authors:  Russell A Gould; Lina M Aboulmouna; Jeffrey D Varner; Jonathan T Butcher
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2013-03-05

7.  Genome-wide discovery of missing genes in biological pathways of prokaryotes.

Authors:  Yong Chen; Fenglou Mao; Guojun Li; Ying Xu
Journal:  BMC Bioinformatics       Date:  2011-02-15       Impact factor: 3.169

8.  Monte Carlo analysis of an ODE Model of the Sea Urchin Endomesoderm Network.

Authors:  Clemens Kühn; Christoph Wierling; Alexander Kühn; Edda Klipp; Georgia Panopoulou; Hans Lehrach; Albert J Poustka
Journal:  BMC Syst Biol       Date:  2009-08-23

9.  Trends in modeling Biomedical Complex Systems.

Authors:  Luciano Milanesi; Paolo Romano; Gastone Castellani; Daniel Remondini; Petro Liò
Journal:  BMC Bioinformatics       Date:  2009-10-15       Impact factor: 3.169

10.  A Systems Biology Approach to Deciphering the Etiology of Steatosis Employing Patient-Derived Dermal Fibroblasts and iPS Cells.

Authors:  Justyna Jozefczuk; Karl Kashofer; Ramesh Ummanni; Frauke Henjes; Samrina Rehman; Suzanne Geenen; Wasco Wruck; Christian Regenbrecht; Andriani Daskalaki; Christoph Wierling; Paola Turano; Ivano Bertini; Ulrike Korf; Kurt Zatloukal; Hans V Westerhoff; Hans Lehrach; James Adjaye
Journal:  Front Physiol       Date:  2012-09-03       Impact factor: 4.566

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