SRX190089
GSM945306: UW ChipSeq HCPEpiC H3K4me3

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Neural
Cell type
HCPEpiC
Tissue
epithelium
Lineage
ectoderm
Description
choroid plexus epithelial cells

Attributes by original data submitter

Sample

source_name
HCPEpiC
biomaterial_provider
ScienCell
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
HCPEpiC
cell organism
human
cell description
choroid plexus 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
wgEncodeEH000948
labexpid
DS15758
labversion
Bowtie 0.12.7
replicate
1

Sequenced DNA Library

library_name
GSM945306: UW_ChipSeq_HCPEpiC_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
55436711
Reads aligned (%)
96.6
Duplicates removed (%)
31.9
Number of peaks
37164 (qval < 1E-05)

hg19

Number of total reads
55436711
Reads aligned (%)
96.3
Duplicates removed (%)
32.2
Number of peaks
38543 (qval < 1E-05)

Base call quality data from DBCLS SRA