SRX067461
GSM733710: Bernstein NH-A H3K4me1

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Neural
Cell type
NH-A
Tissue
brain
Lineage
ectoderm
Description
astrocytes (also called Astrocy)

Attributes by original data submitter

Sample

source_name
NH-A
biomaterial_provider
Lonza
lab
Broad
lab description
Bernstein - Broad Institute
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell organism
human
cell description
astrocytes (also called Astrocy)
cell karyotype
normal
cell lineage
ectoderm
antibody antibodydescription
rabbit polyclonal. Antibody Target: H3K4me1
antibody targetdescription
Histone H3 (mono methyl K4). Is associated with enhancers, and downstream of transcription starts.
antibody vendorname
abcam
antibody vendorid
ab8895
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH001027
replicate
1,2
softwareversion
ScriptureVPaperR3

Sequenced DNA Library

library_name
GSM733710: Bernstein_NH-A_H3K4me1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
35676374
Reads aligned (%)
79.3
Duplicates removed (%)
6.2
Number of peaks
25130 (qval < 1E-05)

hg19

Number of total reads
35676374
Reads aligned (%)
79.0
Duplicates removed (%)
6.7
Number of peaks
24992 (qval < 1E-05)

Base call quality data from DBCLS SRA