Literature DB >> 21419159

Systems biology and cancer: promises and perils.

Stuart G Baker1, Barnett S Kramer.   

Abstract

Systems biology uses systems of mathematical rules and formulas to study complex biological phenomena. In cancer research there are three distinct threads in systems biology research: modeling biology or biophysics with the goal of establishing plausibility or obtaining insights, modeling based on statistics, bioinformatics, and reverse engineering with the goal of better characterizing the system, and modeling with the goal of clinical predictions. Using illustrative examples we discuss these threads in the context of cancer research. Published by Elsevier Ltd.

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Year:  2011        PMID: 21419159      PMCID: PMC3156977          DOI: 10.1016/j.pbiomolbio.2011.03.002

Source DB:  PubMed          Journal:  Prog Biophys Mol Biol        ISSN: 0079-6107            Impact factor:   3.667


  25 in total

Review 1.  Cancer systems biology: exploring cancer-associated genes on cellular networks.

Authors:  E Wang; A Lenferink; M O'Connor-McCourt
Journal:  Cell Mol Life Sci       Date:  2007-07       Impact factor: 9.261

Review 2.  The use of genomics in clinical trial design.

Authors:  Richard Simon
Journal:  Clin Cancer Res       Date:  2008-10-01       Impact factor: 12.531

3.  Learning gene regulatory networks from gene expression measurements using non-parametric molecular kinetics.

Authors:  Tarmo Aijö; Harri Lähdesmäki
Journal:  Bioinformatics       Date:  2009-08-25       Impact factor: 6.937

Review 4.  The somatic mutation theory of cancer: growing problems with the paradigm?

Authors:  Ana M Soto; Carlos Sonnenschein
Journal:  Bioessays       Date:  2004-10       Impact factor: 4.345

5.  Simpler evaluation of predictions and signature stability for gene expression data.

Authors:  Yvonne E Pittelkow; Susan R Wilson
Journal:  J Biomed Biotechnol       Date:  2010-01-10

Review 6.  Morphogens, morphostats, microarchitecture and malignancy.

Authors:  John D Potter
Journal:  Nat Rev Cancer       Date:  2007-06       Impact factor: 60.716

7.  Mathematical modelling of engineered tissue growth using a multiphase porous flow mixture theory.

Authors:  Greg Lemon; John R King; Helen M Byrne; Oliver E Jensen; Kevin M Shakesheff
Journal:  J Math Biol       Date:  2006-02-07       Impact factor: 2.164

8.  Simple and flexible classification of gene expression microarrays via Swirls and Ripples.

Authors:  Stuart G Baker
Journal:  BMC Bioinformatics       Date:  2010-09-08       Impact factor: 3.169

9.  Plausibility of stromal initiation of epithelial cancers without a mutation in the epithelium: a computer simulation of morphostats.

Authors:  Stuart G Baker; Ana M Soto; Carlos Sonnenschein; Antonio Cappuccio; John D Potter; Barnett S Kramer
Journal:  BMC Cancer       Date:  2009-03-23       Impact factor: 4.430

10.  Paradoxes in carcinogenesis: new opportunities for research directions.

Authors:  Stuart G Baker; Barnett S Kramer
Journal:  BMC Cancer       Date:  2007-08-06       Impact factor: 4.430

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  6 in total

Review 1.  Systems biology for molecular life sciences and its impact in biomedicine.

Authors:  Miguel Ángel Medina
Journal:  Cell Mol Life Sci       Date:  2012-08-19       Impact factor: 9.261

2.  Systems biology and cancer.

Authors:  Ana M Soto; Carlos Sonnenschein; Philip K Maini; Denis Noble
Journal:  Prog Biophys Mol Biol       Date:  2011-08       Impact factor: 3.667

3.  Is systems biology a promising approach to resolve controversies in cancer research?

Authors:  Ana M Soto; Carlos Sonnenschein
Journal:  Cancer Cell Int       Date:  2012-03-26       Impact factor: 5.722

4.  Evaluating a common semi-mechanistic mathematical model of gene-regulatory networks.

Authors:  Alexandru Mizeranschi; Huiru Zheng; Paul Thompson; Werner Dubitzky
Journal:  BMC Syst Biol       Date:  2015-09-01

5.  Dynamic transcription factor networks in epithelial-mesenchymal transition in breast cancer models.

Authors:  Anaar Siletz; Michael Schnabel; Ekaterina Kniazeva; Andrew J Schumacher; Seungjin Shin; Jacqueline S Jeruss; Lonnie D Shea
Journal:  PLoS One       Date:  2013-04-08       Impact factor: 3.240

6.  Connecting signaling and metabolic pathways in EGF receptor-mediated oncogenesis of glioblastoma.

Authors:  Arup K Bag; Sapan Mandloi; Saulius Jarmalavicius; Susmita Mondal; Krishna Kumar; Chhabinath Mandal; Peter Walden; Saikat Chakrabarti; Chitra Mandal
Journal:  PLoS Comput Biol       Date:  2019-08-06       Impact factor: 4.475

  6 in total

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