Bulk RNA-seq analysis during fin regeneration of regeneration-associated silencer knockout zebrafish reveals its repressive ability silencing expression of nearby genes

Bulk RNA-seq analysis during fin regeneration of regeneration-associated silencer (s1) knockout zebrafish identified several up-regulated genes near s1 from comparison of silencer knockout mutant fish and their WT siblings at three different time points (0, 1 and 4 day(s) post amputation (dpa)), indicating that s1 has repressive ability to control downregulation of the nearby genes. 10 caudal fins each of regeneration-associated silencer (s1) knockout zebrafish and their WT siblings at 0, 1 and 4 dpa time points were pooled and three biological replicates were used for preparing bulk RNA-seq DNA libraries to find differentially upregulated genes in s1 knockout fish at each timepoint.