Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Breast
Cell type
MDA-MB-436
Primary Tissue
Breast
Site of Extraction
Effusion, Pleural
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
MB436 cells, input
cell line
MB436
cell type
Breast cancer cell line
treatment
Control
chip antibody
none

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
23795608
Reads aligned (%)
77.8
Duplicates removed (%)
2.4
Number of peaks
205 (qval < 1E-05)

hg19

Number of total reads
23795608
Reads aligned (%)
76.8
Duplicates removed (%)
3.1
Number of peaks
573 (qval < 1E-05)

Base call quality data from DBCLS SRA