SRX190032
GSM945249: UW ChipSeq HA-sp H3K4me3

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Neural
Cell type
HA-sp
Tissue
spinal cord
Lineage
ectoderm
Description
astrocytes spinal cord

Attributes by original data submitter

Sample

source_name
HA-sp
biomaterial_provider
ScienCell
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
HA-sp
cell organism
human
cell description
astrocytes spinal cord
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
wgEncodeEH000974
labexpid
DS16044
labversion
Bowtie 0.12.7
replicate
1

Sequenced DNA Library

library_name
GSM945249: UW_ChipSeq_HA-sp_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
51904474
Reads aligned (%)
97.2
Duplicates removed (%)
27.8
Number of peaks
31616 (qval < 1E-05)

hg19

Number of total reads
51904474
Reads aligned (%)
96.8
Duplicates removed (%)
28.5
Number of peaks
31717 (qval < 1E-05)

Base call quality data from DBCLS SRA