Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
AGO1

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
AGO1 ChIP MCF7 estradiol
cell line
MCF7
source tissue
mammary gland, breast; derived from metastatic site: pleural effusion
treatment
Estradiol 10 nM 1h
chip antibody
anti AGO1 (clone 4B8, Sigma-Aldrich)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
MCF7 cells were crosslinked, chromatin from nuclear lisates was sonicated and protein-DNA complexes were isolated with antibody. Input samples correspond to 10% of the material before antibody isolation. Libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina according to the manufacturer's instructions. NEBNext Multiplex Oligos for Illumina were used during library amplification

Sequencing Platform

instrument_model
NextSeq 550

hg19

Number of total reads
77778082
Reads aligned (%)
87.0
Duplicates removed (%)
9.2
Number of peaks
1891 (qval < 1E-05)

hg38

Number of total reads
77778082
Reads aligned (%)
89.4
Duplicates removed (%)
7.6
Number of peaks
2339 (qval < 1E-05)

Base call quality data from DBCLS SRA