title: Transcriptomics using next generation sequencing technologies.
abstract: Next generation sequencing technologies may now be applied to the study of transcriptomics. RNA-Seq or RNA sequencing employs high-throughput sequencing of complementary DNA fragments delivering a transcriptional profile. In this chapter, we aim to provide a starting point for Xenopus researchers planning on starting an RNA-Seq transcriptomics study. We begin by providing a section on template isolation and library preparation. The next section comprises the main bioinformatics procedures that need to be performed for raw data processing, normalization, and differential gene expression. Finally, we have included a section on studying deep sequencing results in Xenopus, which offers general guidance as to what can be done in this model.
authors.affiliation: Center for Aging and Regeneration and Millennium Nucleus in Regenerative Biology, Pontificia Universidad Catolica de Chile, Santiago, Chile.
authors.forename: Dasfne
authors.initials: D
authors.lastname: Lee-Liu
authors.forename: Leonardo I
authors.initials: LI
authors.lastname: Almonacid
authors.forename: Fernando
authors.initials: F
authors.lastname: Faunes
authors.forename: Francisco
authors.initials: F
authors.lastname: Melo
authors.forename: Juan
authors.initials: J
authors.lastname: Larrain
mesh_terms: D000818:Animals; D001483:Base Sequence; D002874:Chromosome Mapping; D020224:Expressed Sequence Tags; D020869:Gene Expression Profiling; D015723:Gene Library; D059014:High-Throughput Nucleotide Sequencing; D012313:RNA / Q000235:genetics / Q000302:isolation & purification; D017422:Sequence Analysis, DNA; D012984:Software; D059467:Transcriptome; D014981:Xenopus / Q000235:genetics*; D029867:Xenopus Proteins / Q000235:genetics / Q000378:metabolism
chemical_list: D029867:Xenopus Proteins; D012313:RNA