Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Breast
Cell type
HCC1937
Primary Tissue
Breast
Site of Extraction
Soft Tissue
Tissue Diagnosis
Adenocarcinoma Ductal

Attributes by original data submitter

Sample

source_name
HCC1937 cells, H3K4me1 ChIP
cell line
HCC1937
cell type
Breast cancer cell line
treatment
Control
chip antibody
H3K4me1 (Abcam, ab8895, GR193882-2)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-seq libraries were prepared for sequencing using standard Illumina protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
31414693
Reads aligned (%)
88.4
Duplicates removed (%)
3.6
Number of peaks
45423 (qval < 1E-05)

hg19

Number of total reads
31414693
Reads aligned (%)
88.1
Duplicates removed (%)
3.8
Number of peaks
45245 (qval < 1E-05)

Base call quality data from DBCLS SRA