Stem Cell Transcriptional Networks : Methods and Protocols - Kidder, Benjamin L.; SpringerLink (Online service) (New York, NY : Springer New York : Imprint: Humana, 2014)
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.
Keywords: Cell biology; Stem cells; Cell Biology; Stem Cells