Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Cardiovascular
Cell type
Heart
MeSH Description
The hollow, muscular organ that maintains the circulation of the blood.

Attributes by original data submitter

Sample

source_name
Heart
tissue
primary heart tissues
age
E12.5
chip antibody
none (input)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Fragments 150-300 bp were size-selected by 2% agarose gel electrophoresis. Recovered DNA was amplified using Phusion DNA polysome (NEB), multiplexing PCR primer 1.0, and one indexed primer. The amplified libraries were purified with Agencourt AMPure XP beads (Beckman Coulter). The libraries were quantitated using the Quant-iT DNA quantitation kit (Invitrogen). The DNA size distribution of the library was measured by an Agilent Bioanalyzer. RNA-seq and ChIP-seq library preparation were performed according to the instruction of NEB NEXT-generation library preparation kit. 2 µg of pooled RNA were used for two rounds of poly(A) mRNA purification by Dynabeads Oligo(dT)25 (Invitrogen). RNA was reverse transcribed by SuperScript III (Invitrogen) and random hexamer primers. After RNaseH treatment and PolI catalyzed 2nd-strand cDNA synthesis, DNA end repair was achieved by End-it kit (Epicnetre). DNA was then A-tailed with Exo- Klenow (NEB), and adaptors were ligated using Quick T4 DNA Ligase (NEB).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
27266069
Reads aligned (%)
98.0
Duplicates removed (%)
8.7
Number of peaks
666 (qval < 1E-05)

mm9

Number of total reads
27266069
Reads aligned (%)
97.9
Duplicates removed (%)
8.8
Number of peaks
665 (qval < 1E-05)

Base call quality data from DBCLS SRA