ChIP-Atlas: SRX2854444

Antigen

Cell type Class: Neural
Cell type: Retina
MeSH Description: The ten-layered nervous tissue membrane of the eye. It is continuous with the OPTIC NERVE and receives images of external objects and transmits visual impulses to the brain. Its outer surface is in contact with the CHOROID and the inner surface with the VITREOUS BODY. The outer-most layer is pigmented, whereas the inner nine layers are transparent.

library_strategy: ATAC-seq
library_source: GENOMIC
library_selection: other
library_construction_protocol: Chromatin was extracted and processed for Tn5-mediated tagmentation and adapter incorporation, according to the manufacturer’s protocol (Nextera DNA sample preparation kit, Illumina®) at 37 °C for 30 minutes. Reduced-cycle amplification was carried out in presence of compatible indexed sequencing adapters. Total cellular RNA was purified using the Qiagen RNeasy Mini kit and samples with RNA integrity number ≥ 7 were further processed. Total RNA was denatured at 65°C for 5 minutes, cooled on ice, purified and incubated at 80°C for two minutes. The eluted mRNA was fragmented at 94°C for 8 min and converted to double stranded cDNA, end repaired, A-tailed, and ligated with indexed adaptors. The quality of the libraries was assessed by DNA-based fluorometric assay (Thermo Fisher ScientificTM) and automated capillary electrophoresis (Agilent Technologies, Inc.). Up to 3 samples per lane were pooled and run on a HiSeq2500 Illumina sequencer with a paired-end read of 50bp. The quality of the libraries was also assessed by RNA-based fluorometric assay (Thermo Fisher ScientificTM) and automated capillary electrophoresis (Agilent Technologies, Inc.).