SRX067471
GSM733720: Bernstein NHEK H3K4me3

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

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
donor_id
ENCDO268AAA,ENCDO303AAA
biomaterial_type
primary cell
cell_type
keratinocyte
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: H3K4me3
antibody
H3K4me3
antibody targetdescription
Histone H3 (tri methyl K4). Marks promoters that are active or poised to be activated.
antibody vendorname
1)abcam; 2)Millipore
antibody vendorid
ab8580; 07-473
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
GSM733720: Bernstein_NHEK_H3K4me3
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
34281276
Reads aligned (%)
64.5
Duplicates removed (%)
7.0
Number of peaks
30138 (qval < 1E-05)

hg19

Number of total reads
34281276
Reads aligned (%)
64.0
Duplicates removed (%)
8.0
Number of peaks
30042 (qval < 1E-05)

Base call quality data from DBCLS SRA