Computational Biology of Embryonic Stem Cells

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Computational biology in combination with large-scale biology has played a critical role in exploring the great potentials of embryonic stem cells, resulting in significant discoveries. This e-book ...
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Role of Translationally Regulated Genes in Embryonic Stem Cell Differentiation: Integration of Transcriptome and Translational State Profiling

Pp. 180-192 (13)

Qian Yi Lee, Winston Koh, Prabha Sampath and Vivek Tanavde

Abstract

This chapter describes a method for genome-wide identification of translationally regulated genes during embryonic stem cell differentiation using integrated transcriptome and translation state profiling. Previous attempts at identification of translationally regulated genes have focused on measuring the fractionation of the mRNA molecules in the translated and untranslated fractions without considering the transcriptional status of these genes. In this method we describe how integrating information about transcriptional and translational status of genes enables in identification of translationally regulated genes with much greater accuracy. This approach developed for microarrays can also be used for gene expression measured by next generation sequencing.

Keywords:

Translationally regulated genes, human embryonic stem cell, diffrentiation, integration, transcriptome, translational state profiling, all-trans retinoic acid (ATRA).

Affiliation:

Bioinformatics Institute, 30 Biopolis Street, #07-01, Matrix, Singapore 138671