Curated Sample Data


Genome
hg19
Antigen Class
TFs and others
Antigen
AGO1
Cell type Class
Breast
Cell type
MCF-7

Cell type information


Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by Original Data Submitter


source_name
Human breast cells
cell type
MCF7
chip antibody
AGO1-4B8
antibody vendor
Monoclonal anti-AGO1

Metadata from Sequence Read Archive

Library Description


library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Performed with Illumina protocol. 10Ng of inmunoprecipitated DNA was en-repaired, and Illumina double stranded adapters for single read sequencing were ligated to the DNA. After purification of the sample with a MinElute spin column, we size the selected libraries on a 2% agarose gel and fragments corresponding to an insert size range of around 130bp were recovered. The libraries were finally amplified with an 18-cycle PCR reaction, and library quality was confirmed on the Agilent 2100 Bioanalyzer. The samples were loaded at concentrations of 8-11 pm onto Illumina single read flowcells and sequenced on the Illumina Genome Analyzer Iix using a 40 cycles recipe.

Platform Information


instrument_model
Illumina Genome Analyzer IIx

External Database Query

Logs in read processing pipeline


Number of total reads
17993979
Reads aligned (%)
98.1
Duplicates removed (%)
48.2
Number of peaks
157 (qval < 1E-05)

Sequence Quality Data from DBCLS SRA