Gene expression matrix related to the study of chicken RNA editome

To characterize the repertoire of A-to-I RNA editing sites (RESs) in chicken and investigate its evolutionary and functional features, we generated RNA-Seq data from the domestic chickens (DCs) and its wild ancestors – the red junglefowl (RJFs). 96 RNA samples were collected from 12 different somatic tissues (i.e., eye, heart, kidney, liver, lung, muscle, spleen, and five distinct brain regions, namely, CC – cerebral cortex, CV – cerebellar vermis, CS – corpus striatum, OB – olfactory bulb, and OL – optic lobe) of 13 adult chickens (including 9 DCs and 4 RJFs) and stored in RNAlater at −80°C until use.

In addition, to examine catalytic activity of ADARs during chicken editing, we also included 18 RNA samples from chicken embryonic fibroblast cell line UMNSAH/DF-1 (DF-1) with ADAR knockdown or ADARB2 overexpression. RNA was isolated using Trizol reagent (Invitrogen, Carlsbad, CA) and RNeasy Mini Kits (Qiagen, Germantown, MD), purified using magnetic oligo-dT beads, and checked for quality using a Nanodrop spectrophotometer and agarose gel electrophoresis. 150 bp paired-end libraries were then constructed using NEBNext® UltraTM RNA Library Prep Kit for Illumina® (NEB, Ipswich, MA) and sequenced on the Illumina platform after quantification.