Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
PADI2

Cell type

Cell type Class
Breast
Cell type
T-47D
Primary Tissue
Breast
Tissue Diagnosis
Adenocarcinoma Ductal

Attributes by original data submitter

Sample

source_name
T47D PADI2 T0
cell line
T47D
r5020 treatment
Untreated
chip antibody
PADI2 antibody (z-22)
chip antibody vendor
Santa Cruz

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
PADI2 was immunoprecipitated with 6μg of PADI2 antibody (z-22):sc-133877 lot number E1214 and H0715 by 50 μg of chromatin and 42μl of Protein A-Agarose Beads (Diagenode). T47D-MTVL cells, without treatment or transfected with -amanitin resistant HA-tagged wild type (WTr) versus R1810Ar mutant RNAP2 were cross-linked for 10 minutes with 1% formaldehyde. Lysate were sonicated to a DNA fragment size range of 200-300bp using a Biorupter sonicator (Diagenode). PADI2 was immunoprecipitated with 6μg of PADI2 antibody (z-22):sc-133877 lot number E1214 and H0715 by 50 μg and for RNAP2, 150 μg chromatin was incubated with 20μg of anti-HA (ab9110) antibody followed by 42μl of Protein A-Agarose Beads (Diagenode). Libraries were prepared using standadr Illumina instruction of NEBNext® ChIP-Seq Library Prep Reagent.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
94681872
Reads aligned (%)
35.8
Duplicates removed (%)
59.6
Number of peaks
9751 (qval < 1E-05)

hg38

Number of total reads
94681872
Reads aligned (%)
37.0
Duplicates removed (%)
58.5
Number of peaks
9666 (qval < 1E-05)

Base call quality data from DBCLS SRA