SRX189961
GSM945178: UW ChipSeq BJ H3K4me3

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Epidermis
Cell type
BJ
Primary Tissue
Skin
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
BJ
biomaterial_provider
ATCC
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
BJ
cell organism
human
cell description
skin fibroblast, "The line was established from skin taken from normal foreskin." - ATCC. (PMID: 9916803)
cell karyotype
normal
cell sex
M
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
wgEncodeEH000453
labexpid
DS11563
labversion
Bowtie 0.12.5
replicate
1

Sequenced DNA Library

library_name
GSM945178: UW_ChipSeq_BJ_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
38273986
Reads aligned (%)
83.6
Duplicates removed (%)
22.3
Number of peaks
31304 (qval < 1E-05)

hg19

Number of total reads
38273986
Reads aligned (%)
83.4
Duplicates removed (%)
22.6
Number of peaks
31400 (qval < 1E-05)

Base call quality data from DBCLS SRA