SRX176878
GSM986081: siNT H3K4me1 E2 r1; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Breast
Cell type
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
siNT_H3K4me1_estrogen
cell line
MCF-7
cell type
breast cancer cells
stimulated with
E2 at final conc. 100nM for 3 hrs
genotype/variation
negative control
tranfected with
AllStars Negative Control siRNA (Cat nr:1027281, Qiagen)
chip antibody
anti-H3K4me1
chip antibody vendor
Abcam

Sequenced DNA Library

library_name
GSM986081: siNT_H3K4me1_E2_r1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
27348356
Reads aligned (%)
97.7
Duplicates removed (%)
4.2
Number of peaks
61007 (qval < 1E-05)

hg19

Number of total reads
27348356
Reads aligned (%)
97.5
Duplicates removed (%)
4.3
Number of peaks
60556 (qval < 1E-05)

Base call quality data from DBCLS SRA