SRX189945
GSM945162: UW ChipSeq Caco-2 H3K4me3

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Digestive tract
Cell type
Caco-2
Primary Tissue
Colon
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
Caco-2
biomaterial_provider
ATCC
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
Caco-2
cell organism
human
cell description
colorectal adenocarcinoma. (PMID: 1939345)
cell karyotype
cancer
cell lineage
endoderm
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
wgEncodeEH000454
labexpid
DS11784
labversion
Bowtie 0.12.5
replicate
1

Sequenced DNA Library

library_name
GSM945162: UW_ChipSeq_Caco-2_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
31780026
Reads aligned (%)
94.0
Duplicates removed (%)
20.1
Number of peaks
35122 (qval < 1E-05)

hg19

Number of total reads
31780026
Reads aligned (%)
93.7
Duplicates removed (%)
20.3
Number of peaks
35140 (qval < 1E-05)

Base call quality data from DBCLS SRA