Next Generation Sequencing Facilitates Quantitative Analysis of transcriptome and epigenome in skeletal stem cell sorted from Ptipfl/fl and Ptipf/f;Col2-Cre mice

Purpose: the goals of this study are to map epigenetic alterations drive the trajectory of skeletal stem and progenitor cells by integrating their cis-regulatory landscape(ChIP-seq) with the transcriptomic profiling(RNA-seq) Methods: freshly sorted SSCs, pBCSPs, and BCSPs by FACS (Fluorescence activated Cell Sorting) from 3-day-old Ptipf/f mice and conditional knockout Ptip by crossing col2a1-cre mice and Ptipfl/fl mice (Ptipf/f;Col2-Cre mice) were performed RNA-seq and ChIP-seq (H3K4me1/H3K4me3/H3K27ac-ChIPseq). Results: using an optimized data analysis workflow, we integrated their cis-regulatory landscape with the transcriptomic profiling. As expected, expression levels of genes were associated with the activity of their related cis-regulatory elements in SSCs, pBCSPs and BCSPs. Conclusions: Ptip play a crucial role in epigenetic alterations governing the developmental trajectory of skeletal stem and progenitor cells. The RNA-seq and ChIP-seq (H3K4me1,H3K4me3,H3K27ac) of SSC, pBCSP and BCSP sorted from Ptipf/f mice and Ptipf/f;Col2-Cre mice at P3.