GSE113147
Classification and functional identification by gene expression patterns from various muscle tissues in a single livestock
Purpose : The RNA-seq data of 18 skeletal muscle tissues obtained from one Jejunal were sequenced. In this study, we aimed to group multiple tissues by unsupervised clustering of tissues based on expression pattern alone, and to find the criteria for dividing the classified tissues and the causative genes. Method : The raw counts obtained from the STAR 2 pass alignment were obtained. The log2 normalization value of raw counts of each sample is classified by hierarchical clustering. The eighteen samples were classified into two groups of nine each. Differential expression analysis of each group through R package DESeq2 revealed a total of 1104 Differentially expressed genes (DEGs). Result and Conclusion : Based on myosin heavy chain family gene expression in Identified DEGs, the criteria for dividing the two groups were determined by the classification of slow-twitch and fast-twitch muscle according to the content of myosin heavy chain fiber. ?In addition, we confirmed the up-regulation of the genes that are characteristic of the slow-twitch muscle, and identified that the central genes that express these features play a role in maintaining cardiovascular homeostasis. Overall design: total RNA sequencing for 18 skeletal muscles from one individual horse