SRX189986
GSM945203: UW ChipSeq Caco-2 H3K27me3

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27me3

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
H3K27me3
antibody antibodydescription
rabbit polyclonal. Antibody Target: H3K27me3
antibody targetdescription
Histone H3 (tri-methyl K27). Marks promoters that are silenced by Polycomb proteins in a given lineage; large domains are found at inactive developmental loci.
antibody vendorname
Millipore
antibody vendorid
07-449
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000454
labexpid
DS12221
labversion
Bowtie 0.12.5
replicate
1

Sequenced DNA Library

library_name
GSM945203: UW_ChipSeq_Caco-2_H3K27me3
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
36802583
Reads aligned (%)
95.3
Duplicates removed (%)
4.2
Number of peaks
302 (qval < 1E-05)

hg19

Number of total reads
36802583
Reads aligned (%)
94.7
Duplicates removed (%)
5.2
Number of peaks
688 (qval < 1E-05)

Base call quality data from DBCLS SRA