PUBLICATION
Fluorescence-Activated Cell Sorting and Gene Expression Profiling of GFP-Positive Cells from Transgenic Zebrafish Lines
- Authors
- Tanabe, H., Seki, M., Itoh, M., Deepak, A., Lal, P., Horiuchi, T., Suzuki, Y., Kawakami, K.
- ID
- ZDB-PUB-160729-23
- Date
- 2016
- Source
- Methods in molecular biology (Clifton, N.J.) 1451: 93-106 (Chapter)
- Registered Authors
- Kawakami, Koichi, Lal, Pradeep
- Keywords
- Enhancer trap, FACS, GFP, Gal4-UAS system, Gene expression analysis, Gene trap, Next-generation sequence, RNA extract, RNA-seq, Tol2 transgenesis
- MeSH Terms
-
- Animals
- Animals, Genetically Modified/genetics
- Animals, Genetically Modified/metabolism*
- Enhancer Elements, Genetic/genetics*
- Flow Cytometry/methods*
- Gene Expression Profiling/methods*
- Gene Expression Regulation, Developmental/genetics
- Gene Expression Regulation, Developmental/physiology
- Green Fluorescent Proteins/genetics
- Green Fluorescent Proteins/metabolism*
- High-Throughput Nucleotide Sequencing
- Zebrafish/genetics
- Zebrafish/metabolism*
- PubMed
- 27464803 Full text @ Meth. Mol. Biol.
Citation
Tanabe, H., Seki, M., Itoh, M., Deepak, A., Lal, P., Horiuchi, T., Suzuki, Y., Kawakami, K. (2016) Fluorescence-Activated Cell Sorting and Gene Expression Profiling of GFP-Positive Cells from Transgenic Zebrafish Lines. Methods in molecular biology (Clifton, N.J.). 1451:93-106.
Abstract
Gene expression profiling is a useful approach for deeper understanding of the specificity of cells, tissues, and organs in the transcriptional level. Recent development of high-throughput next-generation sequence (NGS) allows the RNA-seq method for this profiling. This method provides precise information of transcripts about the quantitation and the structure such as the splicing variants. In this chapter, we describe a method for gene expression profiling of GFP-positive cells from transgenic zebrafish by RNA-seq. We labeled specific cells in the brain with GFP by crossing a Gal4 driver line with the UAS:GFP line, isolated those cells by fluorescence-activated cell sorting (FACS), and analyzed by RNA-seq.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping