SRX189958
GSM945175: UW ChipSeq 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
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
NHEK
cell organism
human
cell description
epidermal keratinocytes
cell karyotype
normal
cell lineage
ectoderm
cell sex
U
antibody
H3K4me3
antibody antibodydescription
rabbit polyclonal. Antibody Target: H3K4me3
antibody targetdescription
Histone H3 (tri methyl K4). Marks promoters that are active or poised to be activated.
antibody vendorname
Millipore
antibody vendorid
07-473
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000472
labexpid
DS11559
labversion
Bowtie 0.12.5
replicate
1

Sequenced DNA Library

library_name
GSM945175: UW_ChipSeq_NHEK_H3K4me3
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
33161041
Reads aligned (%)
75.5
Duplicates removed (%)
20.4
Number of peaks
24871 (qval < 1E-05)

hg19

Number of total reads
33161041
Reads aligned (%)
75.3
Duplicates removed (%)
20.8
Number of peaks
24857 (qval < 1E-05)

Base call quality data from DBCLS SRA