GSE185718
Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and ASIC1a-/- Hypothalamus Transcriptomes
Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare circadian gene expression in WT and ASIC1a-/- mice hypothalamusl transcriptome profiling at ZT1 and ZT13 Methods: hypothalamus mRNA profiles of 3-month-old wild-type (WT) and Acid-sensing ion channel 1a knockout (ASIC1a-/-) mice were generated by deep sequencing, in triplicate, using Illumina GAIIx. Results: Using an optimized data analysis workflow, we mapped about 46 to 56 millions sequence reads per sample to the mouse genome and identified about 15,000 transcripts in the hypothalamus of WT and ASIC1a-/- mice. 3 genes expression changed at ZT1 and 13 genes expreesion changed at ZT13 Conclusions: Our study represents the first detailed analysis of retinal transcriptomes, with biologic replicates, generated by RNA-seq technology. The optimized data analysis workflows reported here should provide a framework for comparative investigations of expression profiles. Our results show that ASIC1a-/- mice only change 16 genes expression Overall design: Hypothalamus mRNA profiles of 3-month old male wild type (WT) and ASIC1a-/- mice