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The Resource Stem cell transcriptional networks : methods and protocols, edited by Benjamin L. Kidder

Stem cell transcriptional networks : methods and protocols, edited by Benjamin L. Kidder

Editor
Contributor
Summary
Stem Cell Transcriptional Networks: Methods and Protocols collects techniques used to increase our understanding of the underlying transcriptional programs of stem cells that promote self-renewal and differentiation. The volume opens with a section on next-generation sequencing library preparation and data analysis.?Continuing with a collection of protocols on visual analysis and interpretation of large-scale interaction networks, this detailed compilation features transcriptional networks in embryonic and adult stem cells, embryo culture and derivation of stem cells, as well as transcriptional programs that promote self-renewal, reprogramming, and transdifferentiation.?Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials, step-by-step, readily reproducible protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Stem Cell Transcriptional Networks: Methods and Protocols aims to provide a key resource for biologists seeking to interrogate these vital networks
Language
eng
Work
Publication
Extent
1 online resource (x, 286 pages)
Contents
  • A Description of the Molecular Signatures Database (MSigDB) Website
  • Use of Genome-Wide RNAi Screens to Identify Regulators of Embryonic Stem Cell Self-Renewal and Pluripotency
  • Correlating Histone Modification Patterns with Gene Expression Data During Hematopoiesis
  • In Vitro Maturation and In Vitro Fertilization of Mouse Oocytes and Preimplantation Embryo Culture
  • Derivation and Manipulation of Trophoblast Stem Cells from Mouse Blastocysts
  • Conversion of Epiblast Stem Cells to Embryonic Stem Cells Using Growth Factors and Small Molecule Inhibitors
  • Generation of Induced Pluripotent Stem Cells Using Chemical Inhibition and Three Transcription Factors
  • Transdifferentiation of Mouse Fibroblasts and Hepatocytes to Functional Neurons
  • Direct Lineage Conversion of Pancreatic Exocrine to Endocrine Beta-Cells In Vivo with Defined Factors
  • Direct Reprogramming of Cardiac Fibroblasts to Cardiomyocytes Using MicroRNAs
  • Efficient Library Preparation for Next-Generation Sequencing Analysis of Genome-Wide Epigenetic and Transcriptional Landscapes in Embryonic Stem Cells
  • Reprogramming Somatic Cells into Pluripotent Stem Cells Using miRNAs
  • Analysis of Next-Generation Sequencing Data Using Galaxy
  • edgeR for Differential RNA-seq and ChIP-seq Analysis: An Application to Stem Cell Biology
  • Use Model-based Analysis of ChIP-Seq (MACS) to Analyze Short Reads Generated by Sequencing Protein-DNA Interactions in Embryonic Stem Cells
  • Spatial Clustering for Identification of ChIP-Enriched Regions (SICER) to Map Regions of Histone Methylation Patterns in Embryonic Stem Cells
  • Identifying Stem Cell Gene Expression Patterns and Phenotypic Networks with AutoSOME
  • Visualization and Clustering of High-Dimensional Transcriptome Data Using GATE
  • Interpreting and Visualizing ChIP-seq Data with the seqMINER Software
Isbn
9781493905126
Instance
Label
Stem cell transcriptional networks : methods and protocols
Title
Stem cell transcriptional networks
Title remainder
methods and protocols
Statement of responsibility
edited by Benjamin L. Kidder
Contributor
Editor
Subject
Genre
Language
eng
Summary
Stem Cell Transcriptional Networks: Methods and Protocols collects techniques used to increase our understanding of the underlying transcriptional programs of stem cells that promote self-renewal and differentiation. The volume opens with a section on next-generation sequencing library preparation and data analysis.?Continuing with a collection of protocols on visual analysis and interpretation of large-scale interaction networks, this detailed compilation features transcriptional networks in embryonic and adult stem cells, embryo culture and derivation of stem cells, as well as transcriptional programs that promote self-renewal, reprogramming, and transdifferentiation.?Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials, step-by-step, readily reproducible protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Stem Cell Transcriptional Networks: Methods and Protocols aims to provide a key resource for biologists seeking to interrogate these vital networks
Member of
Cataloging source
GW5XE
Dewey number
616.02/774
Illustrations
illustrations
Index
index present
LC call number
QH588.S83
Literary form
non fiction
Nature of contents
  • dictionaries
  • bibliography
NLM call number
QU 25
http://library.link/vocab/relatedWorkOrContributorName
Kidder, Benjamin L.
Series statement
Methods in Molecular Biology,
Series volume
1150
http://library.link/vocab/subjectName
  • Stem cells
  • Stem Cells
  • Gene Regulatory Networks
  • Transcription, Genetic
  • Stem cells
Label
Stem cell transcriptional networks : methods and protocols, edited by Benjamin L. Kidder
Instantiates
Publication
Copyright
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
  • A Description of the Molecular Signatures Database (MSigDB) Website
  • Use of Genome-Wide RNAi Screens to Identify Regulators of Embryonic Stem Cell Self-Renewal and Pluripotency
  • Correlating Histone Modification Patterns with Gene Expression Data During Hematopoiesis
  • In Vitro Maturation and In Vitro Fertilization of Mouse Oocytes and Preimplantation Embryo Culture
  • Derivation and Manipulation of Trophoblast Stem Cells from Mouse Blastocysts
  • Conversion of Epiblast Stem Cells to Embryonic Stem Cells Using Growth Factors and Small Molecule Inhibitors
  • Generation of Induced Pluripotent Stem Cells Using Chemical Inhibition and Three Transcription Factors
  • Transdifferentiation of Mouse Fibroblasts and Hepatocytes to Functional Neurons
  • Direct Lineage Conversion of Pancreatic Exocrine to Endocrine Beta-Cells In Vivo with Defined Factors
  • Direct Reprogramming of Cardiac Fibroblasts to Cardiomyocytes Using MicroRNAs
  • Efficient Library Preparation for Next-Generation Sequencing Analysis of Genome-Wide Epigenetic and Transcriptional Landscapes in Embryonic Stem Cells
  • Reprogramming Somatic Cells into Pluripotent Stem Cells Using miRNAs
  • Analysis of Next-Generation Sequencing Data Using Galaxy
  • edgeR for Differential RNA-seq and ChIP-seq Analysis: An Application to Stem Cell Biology
  • Use Model-based Analysis of ChIP-Seq (MACS) to Analyze Short Reads Generated by Sequencing Protein-DNA Interactions in Embryonic Stem Cells
  • Spatial Clustering for Identification of ChIP-Enriched Regions (SICER) to Map Regions of Histone Methylation Patterns in Embryonic Stem Cells
  • Identifying Stem Cell Gene Expression Patterns and Phenotypic Networks with AutoSOME
  • Visualization and Clustering of High-Dimensional Transcriptome Data Using GATE
  • Interpreting and Visualizing ChIP-seq Data with the seqMINER Software
Control code
878123324
Dimensions
unknown
Extent
1 online resource (x, 286 pages)
File format
unknown
Form of item
online
Isbn
9781493905126
Level of compression
unknown
Media category
computer
Media MARC source
rdamedia
Media type code
  • c
Other control number
10.1007/978-1-4939-0512-6
Other physical details
illustrations (some color).
Quality assurance targets
not applicable
Reformatting quality
unknown
Sound
unknown sound
Specific material designation
remote
System control number
(OCoLC)878123324
Label
Stem cell transcriptional networks : methods and protocols, edited by Benjamin L. Kidder
Publication
Copyright
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
  • A Description of the Molecular Signatures Database (MSigDB) Website
  • Use of Genome-Wide RNAi Screens to Identify Regulators of Embryonic Stem Cell Self-Renewal and Pluripotency
  • Correlating Histone Modification Patterns with Gene Expression Data During Hematopoiesis
  • In Vitro Maturation and In Vitro Fertilization of Mouse Oocytes and Preimplantation Embryo Culture
  • Derivation and Manipulation of Trophoblast Stem Cells from Mouse Blastocysts
  • Conversion of Epiblast Stem Cells to Embryonic Stem Cells Using Growth Factors and Small Molecule Inhibitors
  • Generation of Induced Pluripotent Stem Cells Using Chemical Inhibition and Three Transcription Factors
  • Transdifferentiation of Mouse Fibroblasts and Hepatocytes to Functional Neurons
  • Direct Lineage Conversion of Pancreatic Exocrine to Endocrine Beta-Cells In Vivo with Defined Factors
  • Direct Reprogramming of Cardiac Fibroblasts to Cardiomyocytes Using MicroRNAs
  • Efficient Library Preparation for Next-Generation Sequencing Analysis of Genome-Wide Epigenetic and Transcriptional Landscapes in Embryonic Stem Cells
  • Reprogramming Somatic Cells into Pluripotent Stem Cells Using miRNAs
  • Analysis of Next-Generation Sequencing Data Using Galaxy
  • edgeR for Differential RNA-seq and ChIP-seq Analysis: An Application to Stem Cell Biology
  • Use Model-based Analysis of ChIP-Seq (MACS) to Analyze Short Reads Generated by Sequencing Protein-DNA Interactions in Embryonic Stem Cells
  • Spatial Clustering for Identification of ChIP-Enriched Regions (SICER) to Map Regions of Histone Methylation Patterns in Embryonic Stem Cells
  • Identifying Stem Cell Gene Expression Patterns and Phenotypic Networks with AutoSOME
  • Visualization and Clustering of High-Dimensional Transcriptome Data Using GATE
  • Interpreting and Visualizing ChIP-seq Data with the seqMINER Software
Control code
878123324
Dimensions
unknown
Extent
1 online resource (x, 286 pages)
File format
unknown
Form of item
online
Isbn
9781493905126
Level of compression
unknown
Media category
computer
Media MARC source
rdamedia
Media type code
  • c
Other control number
10.1007/978-1-4939-0512-6
Other physical details
illustrations (some color).
Quality assurance targets
not applicable
Reformatting quality
unknown
Sound
unknown sound
Specific material designation
remote
System control number
(OCoLC)878123324

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