Next-Generation Sequencing Identifies Differentially Expressed Genes in Embryonic Hearts Following Caffeine Treatment

ABSTRACT: Purpose: This study aimed to identify differentially expressed genes including alternative splice variants in embryonic ventricles following in utero caffeine treatment. Methods: Pregnant CD-1 mice were injected with 20 mg/kg of caffeine or vehicle control daily from embryonic day (E) 6.5-9.5. On E10.5, total RNA was isolated from embryonic ventricles and used for transcriptomic RNA sequencing with Illumina HiSeq 2000 (1X75bp). RNA-seq reads were aligned to the mouse genome (build mm10) with the Tophat for Illumina tool in the PSU galaxy platform. Counting and annotation of RNA-seq reads as well as alternative splicing analysis were performed with Partek Genomics Suite version 6.11. Differential expression of gene and transcript reads between treatments was analyzed with R package EdgeR.

ORGANISM(S): Mus musculus

SUBMITTER: Xiefan Fang 

PROVIDER: E-GEOD-56902 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress