title: RNA-seq of chicken cecum
design: Total RNA was isolated from each individual sample using Trizol reagent (Invitrogen, Grand Island, NY) according to the manufacturer  s instruction.Three RNA samples were randomly selected in each group and encoded as C1, C2, C3 and T1, T2, T3 to make the library. In total, six libraries were constructed. Subsequently, the RNA libraries were sequenced by Illumina HiSeq2500 platform according to the manufacturer  s instruction at BioMarker Technologies (Beijing, China).Raw data was first processed using a custom Perl script. Clean reads were obtained after removing the adapters, poly-N reads, and low quality reads and used for the downstream analyses. The clean reads were mapped to reference genome sequence (galGal 5.0) using TopHat2 version 2.0.10 (Kim et al., 2013) and bowtie2 software (Langmead & Salzberg, 2012). CircRNAs were predicted using CIRI (CircRNA Identifier) (Gao, Wang, & Zhao, 2015). CircRNA binding sites and the target genes of circRNAs were analyzed using miRanda (Turner, 1985).
library_name: Chicken_C03