SRX186738
GSM1003542: Broad ChipSeq A549 H3K4me3 DEX 100nM

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Lung
Cell type
A549
Primary Tissue
Lung
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
A549
biomaterial_provider
ATCC
biomaterial_type
immortalized cell line
line
A549
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
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
1)abcam; 2)Millipore
antibody vendorid
ab8580; 07-473
controlid
wgEncodeEH003075
replicate
1,2
softwareversion
ScriptureVPaperR3
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
DEX_100nM
treatment description
1 h with 100 nM Dexamethasone (Myers)
control
std
control description
Standard input signal for most experiments.
controlid
A549/DEX_100nM/Input/std
labversion
Illumina_HiSeq_2000
labversion description
Illumina HiSeq 2000
softwareversion
ScriptureVPaperR3

Sequenced DNA Library

library_name
GSM1003542: Broad_ChipSeq_A549_H3K4me3_DEX_100nM
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
71589755
Reads aligned (%)
88.3
Duplicates removed (%)
32.7
Number of peaks
46733 (qval < 1E-05)

hg19

Number of total reads
71589755
Reads aligned (%)
87.7
Duplicates removed (%)
34.0
Number of peaks
46529 (qval < 1E-05)

Base call quality data from DBCLS SRA