Identification of candidate regulatory elements controlling transcriptome during the formation of interphalangeal joints

We report the ChIPseq derived Candidate Enhancer (CE) atlas generated for interphalangeal interzone and phalange, tissues collected during synovial joint formation. Three replicates for interzone and three replicated for phalange were immunoprecipitated (IP) with the H3K27ac antibodies. Also, two replicates for interzone and two replicates for phalange were immunoprecipitated with H3K4me1 antibodies. The IP samples for both histone marks were sequenced and used for annotation of CEs. Further, the CEs were functionally annotated. In parallel, the total RNA for three interzone and three phalange replicates was isolated and mRNA sequencing libraries were constructed. Next the identification of differentially expressed genes (DEGs) and integrative analysis of DEGs and CEs was performed. Integrative analysis of ChIPseq derived candidate enhancers (CEs) defined by enrichment of 2 different histone modifications (H3K27ac and H3K4me1) and transcriptome profiles (RNAseq) in dissected interdigital interzone and phalange.