Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Breast
Cell type
HMEC
Primary Tissue
Breast
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
HMEC
biomaterial_provider
Lonza
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
HMEC
cell organism
human
cell description
mammary epithelial cells
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
wgEncodeEH000466
labexpid
DS15762
labversion
Bowtie 0.12.7
replicate
1

Sequenced DNA Library

library_name
GSM945159: UW_ChipSeq_HMEC_H3K4me3
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg38

Number of total reads
43919082
Reads aligned (%)
97.0
Duplicates removed (%)
25.2
Number of peaks
34853 (qval < 1E-05)

hg19

Number of total reads
43919082
Reads aligned (%)
96.7
Duplicates removed (%)
25.6
Number of peaks
36239 (qval < 1E-05)

Base call quality data from DBCLS SRA