Literature DB >> 24592295

A conceptual review on systems biology in health and diseases: from biological networks to modern therapeutics.

Pramod Rajaram Somvanshi1, K V Venkatesh1.   

Abstract

Human physiology is an ensemble of various biological processes spanning from intracellular molecular interactions to the whole body phenotypic response. Systems biology endures to decipher these multi-scale biological networks and bridge the link between genotype to phenotype. The structure and dynamic properties of these networks are responsible for controlling and deciding the phenotypic state of a cell. Several cells and various tissues coordinate together to generate an organ level response which further regulates the ultimate physiological state. The overall network embeds a hierarchical regulatory structure, which when unusually perturbed can lead to undesirable physiological state termed as disease. Here, we treat a disease diagnosis problem analogous to a fault diagnosis problem in engineering systems. Accordingly we review the application of engineering methodologies to address human diseases from systems biological perspective. The review highlights potential networks and modeling approaches used for analyzing human diseases. The application of such analysis is illustrated in the case of cancer and diabetes. We put forth a concept of cell-to-human framework comprising of five modules (data mining, networking, modeling, experimental and validation) for addressing human physiology and diseases based on a paradigm of system level analysis. The review overtly emphasizes on the importance of multi-scale biological networks and subsequent modeling and analysis for drug target identification and designing efficient therapies.

Entities:  

Keywords:  Biological networks; Genotype; Phenotype; Systems biology; Systems engineering

Year:  2013        PMID: 24592295      PMCID: PMC3933630          DOI: 10.1007/s11693-013-9125-3

Source DB:  PubMed          Journal:  Syst Synth Biol        ISSN: 1872-5325


  156 in total

Review 1.  Systems biology in drug discovery.

Authors:  Eugene C Butcher; Ellen L Berg; Eric J Kunkel
Journal:  Nat Biotechnol       Date:  2004-10       Impact factor: 54.908

2.  Modeling mechanistic biological networks: an advanced Boolean approach.

Authors:  T Handorf; E Klipp
Journal:  Bioinformatics       Date:  2011-12-22       Impact factor: 6.937

3.  Cell death and life in cancer: mathematical modeling of cell fate decisions.

Authors:  Andrei Zinovyev; Simon Fourquet; Laurent Tournier; Laurence Calzone; Emmanuel Barillot
Journal:  Adv Exp Med Biol       Date:  2012       Impact factor: 2.622

4.  Translational and systems medicine.

Authors:  J Nielsen
Journal:  J Intern Med       Date:  2012-02       Impact factor: 8.989

Review 5.  Protein networks in disease.

Authors:  Trey Ideker; Roded Sharan
Journal:  Genome Res       Date:  2008-04       Impact factor: 9.043

6.  Understanding cancer mechanisms through network dynamics.

Authors:  Tammy M K Cheng; Sakshi Gulati; Rudi Agius; Paul A Bates
Journal:  Brief Funct Genomics       Date:  2012-07-18       Impact factor: 4.241

Review 7.  Pathophysiology of insulin resistance.

Authors:  Giorgio Sesti
Journal:  Best Pract Res Clin Endocrinol Metab       Date:  2006-12       Impact factor: 4.690

Review 8.  Construction of a genetic linkage map in man using restriction fragment length polymorphisms.

Authors:  D Botstein; R L White; M Skolnick; R W Davis
Journal:  Am J Hum Genet       Date:  1980-05       Impact factor: 11.025

Review 9.  Multiscale computational models of complex biological systems.

Authors:  Joseph Walpole; Jason A Papin; Shayn M Peirce
Journal:  Annu Rev Biomed Eng       Date:  2013-04-29       Impact factor: 9.590

10.  A computational systems biology software platform for multiscale modeling and simulation: integrating whole-body physiology, disease biology, and molecular reaction networks.

Authors:  Thomas Eissing; Lars Kuepfer; Corina Becker; Michael Block; Katrin Coboeken; Thomas Gaub; Linus Goerlitz; Juergen Jaeger; Roland Loosen; Bernd Ludewig; Michaela Meyer; Christoph Niederalt; Michael Sevestre; Hans-Ulrich Siegmund; Juri Solodenko; Kirstin Thelen; Ulrich Telle; Wolfgang Weiss; Thomas Wendl; Stefan Willmann; Joerg Lippert
Journal:  Front Physiol       Date:  2011-02-24       Impact factor: 4.566

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  18 in total

Review 1.  Systems Biology for Smart Crops and Agricultural Innovation: Filling the Gaps between Genotype and Phenotype for Complex Traits Linked with Robust Agricultural Productivity and Sustainability.

Authors:  Anil Kumar; Rajesh Kumar Pathak; Sanjay Mohan Gupta; Vikram Singh Gaur; Dinesh Pandey
Journal:  OMICS       Date:  2015-10

2.  The genomic complexity underlying pulmonary arterial hypertension: from mendel to networks.

Authors:  Revathi Rajkumar; Ferhaan Ahmad
Journal:  Am J Respir Crit Care Med       Date:  2014-05-15       Impact factor: 21.405

3.  Gene co-expression network analysis for identifying modules and functionally enriched pathways in SCA2.

Authors:  Lance T Pflieger; Warunee Dansithong; Sharan Paul; Daniel R Scoles; Karla P Figueroa; Pratap Meera; Thomas S Otis; Julio C Facelli; Stefan M Pulst
Journal:  Hum Mol Genet       Date:  2017-08-15       Impact factor: 6.150

4.  A Simple Fractionated Extraction Method for the Comprehensive Analysis of Metabolites, Lipids, and Proteins from a Single Sample.

Authors:  Mohamed Salem; Michal Bernach; Krzysztof Bajdzienko; Patrick Giavalisco
Journal:  J Vis Exp       Date:  2017-06-01       Impact factor: 1.355

Review 5.  Physiological significance of bistable circuit design in metabolic homeostasis: role of integrated insulin-glucagon signalling network.

Authors:  Manu Tomar; Pramod R Somvanshi; Venkatesh Kareenhalli
Journal:  Mol Biol Rep       Date:  2022-01-25       Impact factor: 2.742

6.  Pre-Licensure Inter-Professional Perspectives: Pelvic Health Physiotherapy.

Authors:  Grecia Alaniz; Margot Dods; Helena Dackovic; Matthew Mascola; Karen Moreira; Sinéad Dufour
Journal:  Physiother Can       Date:  2020       Impact factor: 1.037

7.  Integrated analysis of mRNA, microRNA and protein in systemic lupus erythematosus-specific induced pluripotent stem cells from urine.

Authors:  Donge Tang; Yuyu Chen; Huiyan He; Jianrong Huang; Wenbiao Chen; Wujian Peng; Qianjin Lu; Yong Dai
Journal:  BMC Genomics       Date:  2016-07-11       Impact factor: 3.969

Review 8.  Facing the challenges of multiscale modelling of bacterial and fungal pathogen-host interactions.

Authors:  Jana Schleicher; Theresia Conrad; Mika Gustafsson; Gunnar Cedersund; Reinhard Guthke; Jörg Linde
Journal:  Brief Funct Genomics       Date:  2017-03-01       Impact factor: 4.241

9.  Physiological fidelity or model parsimony? The relative performance of reverse-toxicokinetic modeling approaches.

Authors:  Michael A Rowland; Edward J Perkins; Michael L Mayo
Journal:  BMC Syst Biol       Date:  2017-03-11

10.  Cell cycle networks link gene expression dysregulation, mutation, and brain maldevelopment in autistic toddlers.

Authors:  Tiziano Pramparo; Michael V Lombardo; Kathleen Campbell; Cynthia Carter Barnes; Steven Marinero; Stephanie Solso; Julia Young; Maisi Mayo; Anders Dale; Clelia Ahrens-Barbeau; Sarah S Murray; Linda Lopez; Nathan Lewis; Karen Pierce; Eric Courchesne
Journal:  Mol Syst Biol       Date:  2015-12-14       Impact factor: 11.429

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