SRX067406
GSM733655: Bernstein NHEK H3K9me1

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K9me1

Cell type

Cell type Class
Epidermis
Cell type
NHEK
Tissue
skin
Lineage
ectoderm
Description
epidermal keratinocytes

Attributes by original data submitter

Sample

source_name
NHEK
biomaterial_provider
Lonza
lab
Broad
lab description
Bernstein - Broad Institute
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell organism
human
cell description
epidermal keratinocytes
cell sex
U
antibody antibodydescription
rabbit polyclonal. Antibody Target: H3K9me1
antibody targetdescription
Histone H3 (mono-methyl K9). Is associated with active and accessible regions. NOTE CONTRAST to H3K9me3 which is associated with repressive heterochromatic state.
antibody vendorname
abcam
antibody vendorid
ab8896
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000072
replicate
1,3,2
softwareversion
ScriptureVPaperR3

Sequenced DNA Library

library_name
GSM733655: Bernstein_NHEK_H3K9me1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
41510157
Reads aligned (%)
62.5
Duplicates removed (%)
4.1
Number of peaks
620 (qval < 1E-05)

hg19

Number of total reads
41510157
Reads aligned (%)
62.2
Duplicates removed (%)
4.8
Number of peaks
911 (qval < 1E-05)

Base call quality data from DBCLS SRA