Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K9me2

Cell type

Cell type Class
Kidney
Cell type
293
Primary Tissue
Kidney
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
HEK293T cells
cell line
HEK293T
treatment
NS
chip antibody
H3K9me2

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin immunoprecipitation was performed using the ChIP-IT High Sensitivity kit (Active Motif #53040) according to manufacturer’s instructions except that Input samples were purified by phenol:chloroform extraction. The following antibodies were used: anti-H3K9me2 (Abcam #ab1220), anti-G9a (Abcam #ab40542), and Rabbit IgG (Jackson Immunoresearch #011-000-003). ChIP samples were quantitated using the Qubit 2.0 Fluorometer (Invitrogen). A portion of each sample was confirmed by qPCR. The remainder of the sample was submitted for high throughput sequencing. Libraries were prepared for high-throughput using the Illumina TruSeq kit as per manufacturer’s recommendations.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
58357482
Reads aligned (%)
98.0
Duplicates removed (%)
24.1
Number of peaks
2320 (qval < 1E-05)

hg19

Number of total reads
58357482
Reads aligned (%)
97.7
Duplicates removed (%)
24.5
Number of peaks
1088 (qval < 1E-05)

Base call quality data from DBCLS SRA