Jump to ContentJump to Main Navigation

You are looking at 1-20 of 24 items

  • Keywords: systems biology x
Clear All Modify Search

View:

Introductory Concepts

Domitilla Del Vecchio and Richard M. Murray

in Biomolecular Feedback Systems

Published in print:
2014
Published Online:
October 2017
ISBN:
9780691161532
eISBN:
9781400850501
Item type:
chapter
Publisher:
Princeton University Press
DOI:
10.23943/princeton/9780691161532.003.0001
Subject:
Biology, Biochemistry / Molecular Biology

This chapter provides a brief introduction to concepts from systems biology; tools from differential equations and control theory; and approaches to the modeling, analysis, and design of biomolecular ... More


The Constituents of Life 2: Organisms and Systems

John Dupré

in Processes of Life: Essays in the Philosophy of Biology

Published in print:
2012
Published Online:
May 2012
ISBN:
9780199691982
eISBN:
9780191738111
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199691982.003.0006
Subject:
Philosophy, Philosophy of Science

This chapter develops the argument of Chapter 4. Further discussion of the importance of microbes leads to a stress on the importance and ubiquity of symbiosis. This, in turn, motivates the ... More


Nonparametric Bayesian Networks *

Katja Ickstadt, Bjöorn Bornkamp, Marco Grzegorczyk, Jakob Wieczorek, Malik R. Sheriff, Hernáan E. Grecco, and Eli Zamir

in Bayesian Statistics 9

Published in print:
2011
Published Online:
January 2012
ISBN:
9780199694587
eISBN:
9780191731921
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199694587.003.0010
Subject:
Mathematics, Probability / Statistics

A convenient way of modelling complex interactions is by employing graphs or networks which correspond to conditional independence structures in an underlying statistical model. One main class of ... More


Aging of the Genome: The dual role of DNA in life and death

Jan Vijg

Published in print:
2007
Published Online:
April 2010
ISBN:
9780198569237
eISBN:
9780191728242
Item type:
book
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198569237.001.0001
Subject:
Biology, Evolutionary Biology / Genetics

Aging has long since been ascribed to the gradual accumulation of DNA mutations in the genome of somatic cells. However, it is only recently that the necessary sophisticated technology has been ... More


Threats to the CBW Prohibition Regimes: The Revolution in the Life Sciences

in Preventing a Biochemical Arms Race

Published in print:
2012
Published Online:
June 2013
ISBN:
9780804782753
eISBN:
9780804786157
Item type:
chapter
Publisher:
Stanford University Press
DOI:
10.11126/stanford/9780804782753.003.0003
Subject:
Political Science, Conflict Politics and Policy

This chapter addresses developments in science and technology that have particular implications for biosecurity. It concentrates on functional genomics, synthetic biology, systems biology, ... More


System Modeling in Cellular Biology: From Concepts to Nuts and Bolts

Zoltan Szallasi, Jorg Stelling, and Vipul Periwal (eds)

Published in print:
2006
Published Online:
August 2013
ISBN:
9780262195485
eISBN:
9780262257060
Item type:
book
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262195485.001.0001
Subject:
Mathematics, Mathematical Biology

Research in systems biology requires the collaboration of researchers from diverse backgrounds, including biology, computer science, mathematics, statistics, physics, and biochemistry. These ... More


A New Biology?

Alfred I. Tauber

in Immunity: The Evolution of an Idea

Published in print:
2017
Published Online:
February 2017
ISBN:
9780190651244
eISBN:
9780190651275
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780190651244.003.0006
Subject:
Philosophy, Philosophy of Science

To describe the immune system’s organization and regulation, immunologists are following ecologists, molecular biologists, physiologists, and neuroscientists in their attempts to establish ... More


The Role of Modeling in Systems Biology

Douglas B. Kell and Joshua D. Knowles

in System Modeling in Cellular Biology: From Concepts to Nuts and Bolts

Published in print:
2006
Published Online:
August 2013
ISBN:
9780262195485
eISBN:
9780262257060
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262195485.003.0001
Subject:
Mathematics, Mathematical Biology

This chapter discusses some of the reasons for seeking to model complex cellular biological systems. It begins by presenting a philosophical overview and historical context. It then considers the ... More


Integrative ecological genomics

Nico M. van Straalen and Dick Roelofs

in An Introduction to Ecological Genomics

Published in print:
2011
Published Online:
December 2013
ISBN:
9780199594689
eISBN:
9780191774812
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199594689.003.0304
Subject:
Biology, Ecology

Systems biology is a new discipline of the life sciences that aims to integrate the knowledge generated by genomics, transcriptomics, proteomics, and metabolomics to obtain a picture of the ... More


Computational Constraints on Modeling in Systems Biology

Vipul Periwal

in System Modeling in Cellular Biology: From Concepts to Nuts and Bolts

Published in print:
2006
Published Online:
August 2013
ISBN:
9780262195485
eISBN:
9780262257060
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262195485.003.0015
Subject:
Mathematics, Mathematical Biology

This chapter reviews various computational algorithms and data structures that are relevant for systems biology. It also provides a summary of the computational aspects of sorting, searching, dynamic ... More


On Modules and Modularity

Zoltan Szallasi, Vipul Periwal, and Jörg Stelling

in System Modeling in Cellular Biology: From Concepts to Nuts and Bolts

Published in print:
2006
Published Online:
August 2013
ISBN:
9780262195485
eISBN:
9780262257060
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262195485.003.0003
Subject:
Mathematics, Mathematical Biology

The complexity of biological systems requires unifying, simplifying concepts that might allow a predictive understanding of their functioning. Suggestions for such concepts include “modularity” along ... More


Software Infrastructure for Effective Communication and Reuse of Computational Models

Andrew Finney, Michael Hucka, Benjamin J. Bornstein, Sarah M. Keating, Bruce E. Shapiro, Joanne Matthews, Ben L. Kovitz, Maria J. Schilstra, Akira Funahashi, John Doyle, and Hiroaki Kitano

in System Modeling in Cellular Biology: From Concepts to Nuts and Bolts

Published in print:
2006
Published Online:
August 2013
ISBN:
9780262195485
eISBN:
9780262257060
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262195485.003.0017
Subject:
Mathematics, Mathematical Biology

This chapter describes Systems Biology Markup Language (SBML), a format for representing models in a way that can be used by different software systems to communicate and exchange those models. By ... More


Towards a Theory of Development

Alessandro Minelli and Thomas Pradeu (eds)

Published in print:
2014
Published Online:
August 2014
ISBN:
9780199671427
eISBN:
9780191781117
Item type:
book
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199671427.001.0001
Subject:
Biology, Developmental Biology

Is it possible to explain and predict the development of living things? And is the formulation of theories helpful to achieve this aim? This volume offers an in-depth examination of the role of ... More


Bayesian Inference of Biological Systems: The Logic of Biology

Vipul Periwal

in System Modeling in Cellular Biology: From Concepts to Nuts and Bolts

Published in print:
2006
Published Online:
August 2013
ISBN:
9780262195485
eISBN:
9780262257060
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262195485.003.0004
Subject:
Mathematics, Mathematical Biology

Systematic model selection and inference in modeling biological systems must deal with the specific problems of incomplete prior knowledge, limited heterogeneous data, and similar but not identical ... More


Through a Glass, Clearly: Experimental Evolution as a Window on Adaptive Genome Evolution

Frank Rosenzweig and Gavin Sherlock

in Experimental Evolution: Concepts, Methods, and Applications of Selection Experiments

Published in print:
2009
Published Online:
March 2012
ISBN:
9780520247666
eISBN:
9780520944473
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520247666.003.0013
Subject:
Biology, Evolutionary Biology / Genetics

This chapter explores recent examples where experimental evolution, empowered by genomic technologies and increasingly informed by systems biology, has fundamentally advanced our understanding of ... More


Multilevel Modeling in Systems Biology: From Cells to Whole Organs

Denis Noble

in System Modeling in Cellular Biology: From Concepts to Nuts and Bolts

Published in print:
2006
Published Online:
August 2013
ISBN:
9780262195485
eISBN:
9780262257060
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262195485.003.0014
Subject:
Mathematics, Mathematical Biology

This chapter discusses the philosophy of multilevel modeling and illustrates this development in the case of the heart. It covers cellular models of the heart; connecting to ion pumps and calcium ... More


Robustness and Sensitivity Analyses in Cellular Networks

Jason E. Shoemaker, Peter S. Chang, Eric C. Kwei, Stephanie R. Taylor, and Francis J. Doyle III

in Control Theory and Systems Biology

Published in print:
2009
Published Online:
August 2013
ISBN:
9780262013345
eISBN:
9780262258906
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262013345.003.0009
Subject:
Biology, Biomathematics / Statistics and Data Analysis / Complexity Studies

This chapter introduces the useful model-analytic tools of both sensitivity analysis and structured singular value analysis and their application to cellular networks. It reviews the Nyquist ... More


Stoichiometric and Constraint-based Modeling

Steffen Klamt and Jörg Stelling

in System Modeling in Cellular Biology: From Concepts to Nuts and Bolts

Published in print:
2006
Published Online:
August 2013
ISBN:
9780262195485
eISBN:
9780262257060
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262195485.003.0005
Subject:
Mathematics, Mathematical Biology

This chapter explains the main concepts of stoichiometric network analysis (SNA). Stoichiometric modeling has become an important approach for understanding the function of metabolic networks. Hence, ... More


Indirect Reciprocity

Karl Sigmund

in Human Social Evolution: The Foundational Works of Richard D. Alexander

Published in print:
2013
Published Online:
May 2015
ISBN:
9780199791750
eISBN:
9780190267858
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:osobl/9780199791750.003.0010
Subject:
Biology, Evolutionary Biology / Genetics

This chapter explores how and why humans exhibit morality. It considers the influence of group competition on human evolution as well as Richard D. Alexander's concept of indirect reciprocity, its ... More


Biological Ontology and Hierarchical Organization: A Defense of Rank Freedom

Samir Okasha

in The Major Transitions in Evolution Revisited

Published in print:
2011
Published Online:
August 2013
ISBN:
9780262015240
eISBN:
9780262295703
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262015240.003.0004
Subject:
Biology, Evolutionary Biology / Genetics

This chapter presents a displacement of the organism as a privileged level of analysis in evolutionary biology. It is concerned with the ontology of biology systems, with particular reference to ... More


View: