Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MYBL2

Cell type

Cell type Class
Breast
Cell type
MCF 10A
Primary Tissue
Breast
Tissue Diagnosis
Fibrocystic Disease

Attributes by original data submitter

Sample

source_name
MCF10A-YAP5SA
cell line
MCF10A-YAP5SA
treatment
ctrl
chip antibody
B-MYB (Santa Cruz sc-724)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-Seq, chromatin from 2 x 10e7 KPL cells or 3.5 x 10e7 MCF10A-YAP5SA was isolated and immunoprecipitated as described above. Libraries for ChIP-Seq were generated using the NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) according to the manufacturer's instructions. Size-selection was performed using Agencourt AMPure XP beads (Beckman Coulter) (150 bp). DNA fragments were amplified by 10-15 cycles of PCR and library quality was analyzed with the Biorad Experion system and the Fragment Analyzer (Advanced Analytical). The amount of library DNA was quantified using pico green.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
20111666
Reads aligned (%)
91.1
Duplicates removed (%)
8.7
Number of peaks
1800 (qval < 1E-05)

hg38

Number of total reads
20111666
Reads aligned (%)
91.3
Duplicates removed (%)
8.5
Number of peaks
1778 (qval < 1E-05)

Base call quality data from DBCLS SRA