Coverart for item
The Resource Gene regulatory networks : methods and protocols, edited by Bart Deplancke, Nele Gheldof

Gene regulatory networks : methods and protocols, edited by Bart Deplancke, Nele Gheldof

Label
Gene regulatory networks : methods and protocols
Title
Gene regulatory networks
Title remainder
methods and protocols
Statement of responsibility
edited by Bart Deplancke, Nele Gheldof
Contributor
Subject
Genre
Language
eng
Member of
Cataloging source
BTCTA
Illustrations
illustrations
Index
index present
LC call number
  • QH506
  • QH450
LC item number
  • .M45 v.786
  • .G4632 2012
Literary form
non fiction
Nature of contents
bibliography
http://library.link/vocab/relatedWorkOrContributorName
  • Deplancke, Bart
  • Gheldof, Nele
Series statement
Methods in molecular biology
Series volume
786
http://library.link/vocab/subjectName
  • Genetic regulation
  • Gene expression
  • Gene Expression
  • Gene Regulatory Networks
  • Transcription Factors
  • Genregulation
  • Methode
  • Netzwerk
Label
Gene regulatory networks : methods and protocols, edited by Bart Deplancke, Nele Gheldof
Instantiates
Publication
Bibliography note
Includes bibliographical references and index
Carrier category
volume
Carrier category code
  • nc
Carrier MARC source
rdacarrier
Content category
text
Content type code
  • txt
Content type MARC source
rdacontent
Contents
Pt. I. Regulatory state components: -- 1. How do you find transcription factors? Computational approaches to compile and annotate repertoires of regulators for any genome / Juan M. Vaquerizas, Sarah A. Teichmann, and Nicholas M. Luscombe -- 2. Expression pattern analysis of regulatory transcription factors in Caenorhabditis elegans / Huiyun Feng, Hannah L. Craig, and Ian A. Hope -- 3. High-throughput SELEX determination of DNA sequences bound by transcription factors in vitro / Nobuo Ogawa and Mark D. Biggin -- 4. Convenient determination of protein-binding DNA sequences using quadruple 9-mer-based microarray and DsRed-monomer fusion protein / Min-Jeong Kim, Pil Joong Chung, Tae-Ho Lee, Tae-Hoon Kim, Baek Hie Nahm, and Yeon-Ki Kim -- 5. Analysis of specific protein-DNA interactions by bacterial one-hybrid assay / Marcus B. Noyes -- 6. MITOMI : a microfluidic platform for in vitro characterization of transcription factor-DNA interaction / Sylvie Rockel, Marcel Geertz, and Sebastian J. Maerkl -- 7. Detecting protein-protein interactions with the split-ubiquitin sensor / Alexander Dunkler, Judith Muller, and Nils Johnsson -- 8. Genome-wide dissection of posttranscriptional and posttranslational interactions / Mukesh Bansal and Andrea Califano -- 9. Linking cellular signalling to gene expression using EXT-encoded reporter libraries / Anna Botvinik and Moritz J. Rossner -- 10. Sample preparation for small RNA massive parallel sequencing / Willemijn M. Gommans and Eugene Berezikov -- Pt. II. Genomic components: -- 11. CAGE (cap analysis of gene expression) : a protocol for the detection of promoter and transcriptional networks / Hazuki Takahashi, Sachi Kato, Mitsuyoshi Murata, and Piero Carninci -- 12. Detecting DNaseI-hypersensitivity sites with MLPA / Thomas Ohnesorg, Stefanie Eggers, and Stefan J. White -- 13. Detecting long-range chromatin interactions using the chromosome conformation capture sequencing (4C-seq) method / Nele Gheldof, Marion Leleu, Daan Noordermeer, Jacques Rougemont, and Alexandre Reymond -- Pt. III. Mapping protein-DNA interactions -- 14. Analyzing transcription factor occupancy during embryo development using ChIP-seq / Yad Ghavi-Helm and Eileen E.M. Furlong -- 15. Genome-wide profiling of DNA-binding proteins using barcode-based multiplex solexa sequencing / Sunil Kumar Raghav and Bart Deplancke -- 16. Computational analysis of protein-DNA interactions from ChIP-seq data / Jacques Rougemont and Felix Naef -- 17. Using a yeast inverse one-hybrid system to identify functional binding sites of transcription factors / Jizhou Yan and Shawn M. Burgess -- 18. Using cisTargetX to predict transcriptional targets and networks in Drosophila / Delphine Potier, Zeynap Kalender Atak, Marina Naval Sanchez, Carl Herrmann, and Stein Aerts -- 19. Proteomic methodologies to study transcription factor function / Harry W. Jarrett -- 20. High-throughput gateway-compatible yeast one-hybrid screen to detect protein-DNA interactions / Korneel Hens, Jean-Daniel Feuz, and Bart Deplancke -- Pt. IV. Visualization GRNs: -- 21. BioTapestry : a tool to visualize the dynamic properties of gene regulatory networks / William J.R. Longabaugh -- Pt. V. Modeling of GRNs: -- 22. Implicit methods for qualitative modeling of gene regulatory networks / Abhishek Garg, Kartik Mohanram, Giovanni De Micheli, and Ioannis Xenarios
Control code
731918798
Dimensions
cm.
Extent
xi, 446 pages
Isbn
9781617792922
Lccn
2011936383
Media category
unmediated
Media MARC source
rdamedia
Media type code
  • n
Other physical details
illustrations
System control number
(OCoLC)731918798
Label
Gene regulatory networks : methods and protocols, edited by Bart Deplancke, Nele Gheldof
Publication
Bibliography note
Includes bibliographical references and index
Carrier category
volume
Carrier category code
  • nc
Carrier MARC source
rdacarrier
Content category
text
Content type code
  • txt
Content type MARC source
rdacontent
Contents
Pt. I. Regulatory state components: -- 1. How do you find transcription factors? Computational approaches to compile and annotate repertoires of regulators for any genome / Juan M. Vaquerizas, Sarah A. Teichmann, and Nicholas M. Luscombe -- 2. Expression pattern analysis of regulatory transcription factors in Caenorhabditis elegans / Huiyun Feng, Hannah L. Craig, and Ian A. Hope -- 3. High-throughput SELEX determination of DNA sequences bound by transcription factors in vitro / Nobuo Ogawa and Mark D. Biggin -- 4. Convenient determination of protein-binding DNA sequences using quadruple 9-mer-based microarray and DsRed-monomer fusion protein / Min-Jeong Kim, Pil Joong Chung, Tae-Ho Lee, Tae-Hoon Kim, Baek Hie Nahm, and Yeon-Ki Kim -- 5. Analysis of specific protein-DNA interactions by bacterial one-hybrid assay / Marcus B. Noyes -- 6. MITOMI : a microfluidic platform for in vitro characterization of transcription factor-DNA interaction / Sylvie Rockel, Marcel Geertz, and Sebastian J. Maerkl -- 7. Detecting protein-protein interactions with the split-ubiquitin sensor / Alexander Dunkler, Judith Muller, and Nils Johnsson -- 8. Genome-wide dissection of posttranscriptional and posttranslational interactions / Mukesh Bansal and Andrea Califano -- 9. Linking cellular signalling to gene expression using EXT-encoded reporter libraries / Anna Botvinik and Moritz J. Rossner -- 10. Sample preparation for small RNA massive parallel sequencing / Willemijn M. Gommans and Eugene Berezikov -- Pt. II. Genomic components: -- 11. CAGE (cap analysis of gene expression) : a protocol for the detection of promoter and transcriptional networks / Hazuki Takahashi, Sachi Kato, Mitsuyoshi Murata, and Piero Carninci -- 12. Detecting DNaseI-hypersensitivity sites with MLPA / Thomas Ohnesorg, Stefanie Eggers, and Stefan J. White -- 13. Detecting long-range chromatin interactions using the chromosome conformation capture sequencing (4C-seq) method / Nele Gheldof, Marion Leleu, Daan Noordermeer, Jacques Rougemont, and Alexandre Reymond -- Pt. III. Mapping protein-DNA interactions -- 14. Analyzing transcription factor occupancy during embryo development using ChIP-seq / Yad Ghavi-Helm and Eileen E.M. Furlong -- 15. Genome-wide profiling of DNA-binding proteins using barcode-based multiplex solexa sequencing / Sunil Kumar Raghav and Bart Deplancke -- 16. Computational analysis of protein-DNA interactions from ChIP-seq data / Jacques Rougemont and Felix Naef -- 17. Using a yeast inverse one-hybrid system to identify functional binding sites of transcription factors / Jizhou Yan and Shawn M. Burgess -- 18. Using cisTargetX to predict transcriptional targets and networks in Drosophila / Delphine Potier, Zeynap Kalender Atak, Marina Naval Sanchez, Carl Herrmann, and Stein Aerts -- 19. Proteomic methodologies to study transcription factor function / Harry W. Jarrett -- 20. High-throughput gateway-compatible yeast one-hybrid screen to detect protein-DNA interactions / Korneel Hens, Jean-Daniel Feuz, and Bart Deplancke -- Pt. IV. Visualization GRNs: -- 21. BioTapestry : a tool to visualize the dynamic properties of gene regulatory networks / William J.R. Longabaugh -- Pt. V. Modeling of GRNs: -- 22. Implicit methods for qualitative modeling of gene regulatory networks / Abhishek Garg, Kartik Mohanram, Giovanni De Micheli, and Ioannis Xenarios
Control code
731918798
Dimensions
cm.
Extent
xi, 446 pages
Isbn
9781617792922
Lccn
2011936383
Media category
unmediated
Media MARC source
rdamedia
Media type code
  • n
Other physical details
illustrations
System control number
(OCoLC)731918798

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