Literature DB >> 30287586

Systems biology primer: the basic methods and approaches.

Iman Tavassoly1, Joseph Goldfarb1, Ravi Iyengar2.   

Abstract

Systems biology is an integrative discipline connecting the molecular components within a single biological scale and also among different scales (e.g. cells, tissues and organ systems) to physiological functions and organismal phenotypes through quantitative reasoning, computational models and high-throughput experimental technologies. Systems biology uses a wide range of quantitative experimental and computational methodologies to decode information flow from genes, proteins and other subcellular components of signaling, regulatory and functional pathways to control cell, tissue, organ and organismal level functions. The computational methods used in systems biology provide systems-level insights to understand interactions and dynamics at various scales, within cells, tissues, organs and organisms. In recent years, the systems biology framework has enabled research in quantitative and systems pharmacology and precision medicine for complex diseases. Here, we present a brief overview of current experimental and computational methods used in systems biology.
© 2018 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society.

Keywords:  Systems Biology; bioinformatics; biological networks; computational biology; computational models; personalized medicine

Mesh:

Year:  2018        PMID: 30287586     DOI: 10.1042/EBC20180003

Source DB:  PubMed          Journal:  Essays Biochem        ISSN: 0071-1365            Impact factor:   8.000


  26 in total

1.  Metabolomics Research Conducted by Nurse Scientists: A Systematic Scoping Review.

Authors:  Laura P Kimble; Sharon Leslie; Nicole Carlson
Journal:  Biol Res Nurs       Date:  2020-07-10       Impact factor: 2.522

2.  Functional Genomics Offers New Tests of Speciation Hypotheses.

Authors:  David P Hopkins; Venera I Tyukmaeva; Zach Gompert; Jeff Feder; Patrik Nosil
Journal:  Trends Ecol Evol       Date:  2020-08-29       Impact factor: 17.712

3.  High dimensionality reduction by matrix factorization for systems pharmacology.

Authors:  Adel Mehrpooya; Farid Saberi-Movahed; Najmeh Azizizadeh; Mohammad Rezaei-Ravari; Farshad Saberi-Movahed; Mahdi Eftekhari; Iman Tavassoly
Journal:  Brief Bioinform       Date:  2022-01-17       Impact factor: 11.622

Review 4.  Radiomics: a primer on high-throughput image phenotyping.

Authors:  Kyle J Lafata; Yuqi Wang; Brandon Konkel; Fang-Fang Yin; Mustafa R Bashir
Journal:  Abdom Radiol (NY)       Date:  2021-08-25

5.  Physical bioenergetics: Energy fluxes, budgets, and constraints in cells.

Authors:  Xingbo Yang; Matthias Heinemann; Jonathon Howard; Greg Huber; Srividya Iyer-Biswas; Guillaume Le Treut; Michael Lynch; Kristi L Montooth; Daniel J Needleman; Simone Pigolotti; Jonathan Rodenfels; Pierre Ronceray; Sadasivan Shankar; Iman Tavassoly; Shashi Thutupalli; Denis V Titov; Jin Wang; Peter J Foster
Journal:  Proc Natl Acad Sci U S A       Date:  2021-06-29       Impact factor: 11.205

Review 6.  Pro-biomics: Omics Technologies To Unravel the Role of Probiotics in Health and Disease.

Authors:  Despoina Eugenia Kiousi; Marina Rathosi; Margaritis Tsifintaris; Pelagia Chondrou; Alex Galanis
Journal:  Adv Nutr       Date:  2021-10-01       Impact factor: 8.701

7.  On the Use of Correlation and MI as a Measure of Metabolite-Metabolite Association for Network Differential Connectivity Analysis.

Authors:  Sanjeevan Jahagirdar; Edoardo Saccenti
Journal:  Metabolites       Date:  2020-04-24

Review 8.  Metabolic Signature of Hepatic Fibrosis: From Individual Pathways to Systems Biology.

Authors:  Ming-Ling Chang; Sien-Sing Yang
Journal:  Cells       Date:  2019-11-12       Impact factor: 6.600

9.  Decoding Clinical Biomarker Space of COVID-19: Exploring Matrix Factorization-based Feature Selection Methods.

Authors:  Farshad Saberi-Movahed; Mahyar Mohammadifard; Adel Mehrpooya; Mahtab Mohammadifard; Farid Saberi-Movahed; Iman Tavassoly; Mohammad Rezaei-Ravari; Kamal Berahmand; Mehrdad Rostami; Saeed Karami; Mohammad Najafzadeh; Davood Hajinezhad; Mina Jamshidi; Farshid Abedi; Elnaz Farbod; Farinaz Safavi; Mohammadreza Dorvash; Shahrzad Vahedi; Mahdi Eftekhari
Journal:  medRxiv       Date:  2021-07-09

10.  Systems Biology Approaches to Understanding the Human Immune System.

Authors:  Bhavjinder K Dhillon; Maren Smith; Arjun Baghela; Amy H Y Lee; Robert E W Hancock
Journal:  Front Immunol       Date:  2020-07-30       Impact factor: 7.561

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