title: Sequencing-based expression profiling in zebrafish.
abstract: Gene expression profiling is a powerful technique for studying biological processes, especially tissue/organ-specific ones, at the molecular level. With the rapid development of the next-generation sequencing techniques, high throughput sequencing-based expression profiling techniques have been more and more widely adopted in molecular biology studies. In this chapter, we described a protocol for applying one of the sequencing-based expression profiling techniques, Digital Gene Expression (DGE), for zebrafish research. The protocol provides guidelines for wet-bench experimental procedures as well as for bioinformatics data analyses. We also discuss potential issues/challenges with the use of DGE.
authors.forename: Jin
authors.initials: J
authors.lastname: Liang
authors.forename: Gabriel
authors.initials: G
authors.lastname: Renaud
authors.forename: Shawn M
authors.initials: SM
authors.lastname: Burgess
mesh_terms: D000818:Animals; D001483:Base Sequence; D002874:Chromosome Mapping / Q000379:methods; D018076:DNA, Complementary / Q000096:biosynthesis / Q000302:isolation & purification; D020224:Expressed Sequence Tags; D020869:Gene Expression Profiling / Q000379:methods*; D008969:Molecular Sequence Data; D020411:Oligonucleotide Array Sequence Analysis; D016133:Polymerase Chain Reaction / Q000379:methods; D012313:RNA / Q000235:genetics / Q000302:isolation & purification; D017422:Sequence Analysis, DNA / Q000379:methods*; D015027:Zebrafish / Q000235:genetics*
chemical_list: D018076:DNA, Complementary; D012313:RNA