Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Neural

Cell type

HRPEpiC

Tissue

epithelium

Lineage

ectoderm

Description

retinal pigment epithelial cells

Sample

source_name

Retinal pigment cells, science cell

chip-seq antibody

Input

cell type

Retinal pigment cells #6540

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Whole cell extracts were sonicated to solubilize the chromatin. The chromatin extracts containing DNA fragments with an average size of 500 bp were immunoprecipitated using different antibodies. Purified immunoprecipitated DNA were prepared for sequencing according to a modified version of the Solexa Genomic DNA protocol. Fragmented DNA was end repaired and subjected to 18 cycles of LM-PCR using oligos provided by Illumina. Amplified fragments between 150 and 300bp (representing shear fragments between 50 and 200nt in length and ~100bp of primer sequence) were isolated by agarose gel electrophoresis and purified.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

36194364

Reads aligned (%)

90.6

Duplicates removed (%)

10.3

Number of peaks

692 (qval < 1E-05)

hg19

Number of total reads

36194364

Reads aligned (%)

90.0

Duplicates removed (%)

11.4

Number of peaks

931 (qval < 1E-05)