SRX189998
GSM945215: UW ChipSeq WI-38 H3K4me3 4OHTAM 20nM 72hr

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Lung
Cell type
WI-38
Primary Tissue
Lung
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
WI-38
biomaterial_provider
Dr. Carl Mann, SBIGeM
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
WI-38
cell organism
human
cell description
embryonic lung fibroblast cells, hTERT immortalized, includes Raf1 construct
cell karyotype
normal
cell lineage
endoderm
cell sex
F
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
4OHTAM_20nM_72hr
treatment description
72 hours with 20 nM 4-hydroxytamoxifen (Stam)
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH002048
labexpid
DS18355
labversion
Bowtie 0.12.7
replicate
1

Sequenced DNA Library

library_name
GSM945215: UW_ChipSeq_WI-38_H3K4me3_4OHTAM_20nM_72hr
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
45991130
Reads aligned (%)
97.0
Duplicates removed (%)
26.2
Number of peaks
27080 (qval < 1E-05)

hg19

Number of total reads
45991130
Reads aligned (%)
96.7
Duplicates removed (%)
26.7
Number of peaks
27058 (qval < 1E-05)

Base call quality data from DBCLS SRA