Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
REST

Cell type

Cell type Class
Others
Cell type
NCI-H295R
Primary Tissue
Adrenal
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
ChIP-seq_NRSF/REST_overexpressed SF-1
chip antibody
NRSF/REST Millipore #07-579
cell type
adrenocortical tumor
cell line
H295R/TR SF-1 cells

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and SF-1 - DNA complexes were isolated with antibody, as described in Lee TI, Johnstone SE, Young RA (2006) Chromatin immunoprecipitation and microarray-based analysis of protein location. Nature Protoc 1(2):729-748. Libraries construction was contracted out to Fasteris SA. At Fasteris SA, barcoded libraries were prepared such that four samples could be run per lane. The quality of starting DNA was assessed prior to library construction at Fasteris SA using an Agilent Bioanalyzer (Agilent, Santa Clara, CA, USA).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
40204515
Reads aligned (%)
89.9
Duplicates removed (%)
6.3
Number of peaks
3504 (qval < 1E-05)

hg38

Number of total reads
40204515
Reads aligned (%)
92.3
Duplicates removed (%)
4.8
Number of peaks
3611 (qval < 1E-05)

Base call quality data from DBCLS SRA