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Updated: Jan 30, 2026

Video Bioinformatics Analysis of Human Embryonic Stem Cell Colony Growth
Published on: May 20, 2010
Bioinformatics Analysis of Single-Cell RNA-Seq Raw Data from iPSC-Derived Neural Stem Cells
Jeffrey Kim1, Marcel M Daadi2,3
1Southwest National Primate Research Center, Texas Biomedical Research Institute, San Antonio, TX, USA.
Abstract:
This chapter describes a pipeline for basic bioinformatics analysis of single-cell sequencing data (see Chap. 10 : Single-Cell Library Preparation). Starting with raw sequencing data, we describe how to quality check samples, to create an index from a reference genome, to align the sequences to an index, and to quantify transcript abundances. The curated data sets will enable differential expression analysis, population analysis, and pathway analysis.
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