Stem Cell Transcriptional Networks : Methods and Protocols / edited by Benjamin L. Kidder.

Format:

Book

Contributor:

Kidder, Benjamin L., editor.

SpringerLink (Online service)

Series:

Methods in Molecular Biology, Methods and Protocols, 1064-3745 ; 1150.

Springer Protocols (Springer-12345)

Methods in Molecular Biology, Methods and Protocols, 1064-3745 ; 1150

Language:

English

Subjects (All):

Life sciences.

Cytology.

Stem cells.

Life Sciences.

Cell Biology.

Stem Cells.

Local Subjects:

Life Sciences.

Cell Biology.

Stem Cells.

Physical Description:

1 online resource (X, 286 pages) : 150 illustrations, 142 illustrations in color.

Contained In:

Springer eBooks

Place of Publication:

New York, NY : Springer New York : Imprint: Humana Press, 2014.

System Details:

text file PDF

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.

Contents:

Efficient Library Preparation for Next-Generation Sequencing Analysis of Genome-Wide Epigenetic and Transcriptional Landscapes in Embryonic Stem Cells

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

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

Reprogramming Somatic Cells into Pluripotent Stem Cells Using miRNAs.

Other Format:

Printed edition:

ISBN:

9781493905126

Access Restriction:

Restricted for use by site license.