Coverart for item
The Resource Bacterial molecular networks : methods and protocols, edited by Jacques van Helden and Ariane Toussaint, Denis Thieffry

Bacterial molecular networks : methods and protocols, edited by Jacques van Helden and Ariane Toussaint, Denis Thieffry

Label
Bacterial molecular networks : methods and protocols
Title
Bacterial molecular networks
Title remainder
methods and protocols
Statement of responsibility
edited by Jacques van Helden and Ariane Toussaint, Denis Thieffry
Contributor
Subject
Genre
Language
eng
Summary
Network-based representations have become pervasive in most fields in biology. Bacterial Molecular Networks: Methods and Protocols provides authoritative descriptions of various experimental and computational methods enabling the characterization and analysis of molecular interaction networks, with a focus on bacteria. Divided into three convenient sections, this volume provides extensive coverage of various experimental and in silico approaches aiming at the characterization of network components, addresses the presentation of computational approaches to analyze the topology of molecular networks, and further introduces a variety of methods and tools enabling scientists to generate qualitative or quantitative dynamical models of molecular processes in bacteria. Written in the highly successful Methods in Molecular Biology{u2122} series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and accessible, Bacterial Molecular Networks: Methods and Protocols is intended primarily for post-graduate students and researchers working in the field of experimental and computational microbiology and provides a combination of up-to-date reviews along with detailed protocols written by the developers of bioinformatics resources, such as databases and software tools
Member of
Cataloging source
GW5XE
Dewey number
572.8/293
Index
index present
Language note
English
LC call number
QH434
LC item number
.B33 2012
Literary form
non fiction
Nature of contents
  • dictionaries
  • bibliography
NLM call number
  • W1
  • QW 25
NLM item number
ME9616J v.804 2012
http://library.link/vocab/relatedWorkOrContributorName
  • Helden, Jacques van
  • Toussaint, Ariane
  • Thieffry, Denis
Series statement
Methods in molecular biology,
Series volume
804
http://library.link/vocab/subjectName
  • Bacterial genetics
  • Cell interaction
  • Bacteria
  • Gene Regulatory Networks
  • Systems Biology
  • Bacterial genetics
  • Cell interaction
Label
Bacterial molecular networks : methods and protocols, edited by Jacques van Helden and Ariane Toussaint, Denis Thieffry
Instantiates
Publication
Note
Includes index
Antecedent source
unknown
Bibliography note
Includes bibliographical references and index
Carrier category
online resource
Carrier category code
  • cr
Carrier MARC source
rdacarrier
Color
multicolored
Content category
text
Content type code
  • txt
Content type MARC source
rdacontent
Contents
Bacterial molecular networks : bridging the gap between functional genomics and dynamical modelling / Jacques van Helden, Ariane Toussaint, and Denis Thieffry -- Bacterial interactomes : from interactions to networks / Emmanuelle Bouveret and Christine Brun -- From bacterial to microbial ecosystems (metagenomics) / Shannon J. Williamson and Shibu Yooseph -- Prokaryote genome fluidity : toward a system approach of the mobilome / Ariane Toussaint and Mick Chandler -- Reticulate classification of mosaic microbial genomes using NeAT website / Gipsi Lima-Mendez -- From metabolic reactions to networks and pathways / Masanori Arita -- Predicting metabolic pathways by sub-network extraction / Karoline Faust and Jacques van Helden -- Directed module detection in a large-scale expression compendium / Qiang Fu [and others] -- Using phylogenetic profiles to predict functional relationships / Matteo Pellegrini -- Extracting regulatory networks of Escherichia coli from RegulonDB / Heladia Salgado [and others] -- Browsing metabolic and regulatory networks with BioCyc / Mario Latendresse, Suzanne Paley, and Peter D. Karp -- Algorithms for systematic identification of small subgraphs / Joseph Geraci, Geoffrey Liu, and Igor Jurisica -- The degree distribution of ntworks : statistical model selection / William P. Kelly, Piers J. Ingram, and Michael P.H. Stumpf -- MAVisto : a tool for biological network motif analysis / Henning Schwöbbermeyer and Röbbe Wünschiers -- Using MCL to extract clusters from networks / Stijn van Dongen and Cei Abreu-Goodger -- Protein complex prediction with RNSC / Andrew D. King, Nataša Pržulj, and Igor Jurisica -- Network analysis and protein function prediction with the PRODISTIN web site / Anaïs Baudot, Ouissem Souiai, and Christine Brun -- Using NeAT Toolbox to compare networks to networks, clusters to clusters, and network to clusters / Sylvain Brohée -- Analyzing biological data using R : methods for graphs and networks / Nolwenn Le Meur and Robert Gentleman -- Detecting structural invariants in biological reaction networks / Jörn Behre [and others] -- Petri nets in Snoopy : a unifying framework for the graphical display, computational modelling, and simulation of bacterial regulatory networks / Wolfgang Marwan, Christian Rohr, and Monika Heiner -- Genetic Network Analyzer : a tool for the qualitative modeling and simulation of bacterial regulatory networks / Grégory Batt [and others] -- Logical modelling of gene regulatory networks with GINsim / Claudine Chaouiya, Aurélien Naldi, and Denis Thieffry -- Modelling the evolution of mutualistic symbioses / Maren L. Friesen and Emily I. Jones -- Modelling the onset of virulence in pthogenic bacteria / Wilfred D. Kepseu [and others] -- Spatial and stochastic cellular modeling with the Smoldyn Simulator / Steven S. Andrews
Control code
769679093
Dimensions
unknown
Extent
1 online resource (xi, 546 pages).
File format
unknown
Form of item
online
Isbn
9781617793608
Level of compression
unknown
Media category
computer
Media MARC source
rdamedia
Media type code
  • c
Other control number
10.1007/978-1-61779-361-5.
Quality assurance targets
not applicable
Reformatting quality
unknown
Sound
unknown sound
Specific material designation
remote
System control number
(OCoLC)769679093
Label
Bacterial molecular networks : methods and protocols, edited by Jacques van Helden and Ariane Toussaint, Denis Thieffry
Publication
Note
Includes index
Antecedent source
unknown
Bibliography note
Includes bibliographical references and index
Carrier category
online resource
Carrier category code
  • cr
Carrier MARC source
rdacarrier
Color
multicolored
Content category
text
Content type code
  • txt
Content type MARC source
rdacontent
Contents
Bacterial molecular networks : bridging the gap between functional genomics and dynamical modelling / Jacques van Helden, Ariane Toussaint, and Denis Thieffry -- Bacterial interactomes : from interactions to networks / Emmanuelle Bouveret and Christine Brun -- From bacterial to microbial ecosystems (metagenomics) / Shannon J. Williamson and Shibu Yooseph -- Prokaryote genome fluidity : toward a system approach of the mobilome / Ariane Toussaint and Mick Chandler -- Reticulate classification of mosaic microbial genomes using NeAT website / Gipsi Lima-Mendez -- From metabolic reactions to networks and pathways / Masanori Arita -- Predicting metabolic pathways by sub-network extraction / Karoline Faust and Jacques van Helden -- Directed module detection in a large-scale expression compendium / Qiang Fu [and others] -- Using phylogenetic profiles to predict functional relationships / Matteo Pellegrini -- Extracting regulatory networks of Escherichia coli from RegulonDB / Heladia Salgado [and others] -- Browsing metabolic and regulatory networks with BioCyc / Mario Latendresse, Suzanne Paley, and Peter D. Karp -- Algorithms for systematic identification of small subgraphs / Joseph Geraci, Geoffrey Liu, and Igor Jurisica -- The degree distribution of ntworks : statistical model selection / William P. Kelly, Piers J. Ingram, and Michael P.H. Stumpf -- MAVisto : a tool for biological network motif analysis / Henning Schwöbbermeyer and Röbbe Wünschiers -- Using MCL to extract clusters from networks / Stijn van Dongen and Cei Abreu-Goodger -- Protein complex prediction with RNSC / Andrew D. King, Nataša Pržulj, and Igor Jurisica -- Network analysis and protein function prediction with the PRODISTIN web site / Anaïs Baudot, Ouissem Souiai, and Christine Brun -- Using NeAT Toolbox to compare networks to networks, clusters to clusters, and network to clusters / Sylvain Brohée -- Analyzing biological data using R : methods for graphs and networks / Nolwenn Le Meur and Robert Gentleman -- Detecting structural invariants in biological reaction networks / Jörn Behre [and others] -- Petri nets in Snoopy : a unifying framework for the graphical display, computational modelling, and simulation of bacterial regulatory networks / Wolfgang Marwan, Christian Rohr, and Monika Heiner -- Genetic Network Analyzer : a tool for the qualitative modeling and simulation of bacterial regulatory networks / Grégory Batt [and others] -- Logical modelling of gene regulatory networks with GINsim / Claudine Chaouiya, Aurélien Naldi, and Denis Thieffry -- Modelling the evolution of mutualistic symbioses / Maren L. Friesen and Emily I. Jones -- Modelling the onset of virulence in pthogenic bacteria / Wilfred D. Kepseu [and others] -- Spatial and stochastic cellular modeling with the Smoldyn Simulator / Steven S. Andrews
Control code
769679093
Dimensions
unknown
Extent
1 online resource (xi, 546 pages).
File format
unknown
Form of item
online
Isbn
9781617793608
Level of compression
unknown
Media category
computer
Media MARC source
rdamedia
Media type code
  • c
Other control number
10.1007/978-1-61779-361-5.
Quality assurance targets
not applicable
Reformatting quality
unknown
Sound
unknown sound
Specific material designation
remote
System control number
(OCoLC)769679093

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