Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
AHR

Cell type

Cell type Class
Blood
Cell type
GM17212
NA
NA

Attributes by original data submitter

Sample

source_name
lymphoblastoid cell line
biomaterial_provider
Coriell lymphoblastoid cell line GM17212
biomaterial_provider
166
treatment
DMSO
cell line
GM17212
chip antibody
D5S6H-lot 1 (Cell Signaling Technology)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were pelleted at 300g for 5 minutes at 4C, resuspended in ice cold phosphate buffered saline and pelleted again. RNA was extracted using the miRNeasy RNA extraction kit. ChIP DNAs were extracted as described previously (PMID: 29268714). ChIP-seq libraries were prepared according to manufacturer's instructions in the ThruPLEX® DNA-seq Kit V2 (Rubicon Genomics, Ann Arbor, MI). The libraries were sequenced to 51 base pairs from both ends on an Illumina HiSeq 4000 following the manufacturer's protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg19

Number of total reads
41679283
Reads aligned (%)
172.5
Duplicates removed (%)
10.0
Number of peaks
8366 (qval < 1E-05)

hg38

Number of total reads
41679283
Reads aligned (%)
175.8
Duplicates removed (%)
9.7
Number of peaks
8329 (qval < 1E-05)

Base call quality data from DBCLS SRA