Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Adipocyte
Cell type
Brown adipocytes
NA
NA

Attributes by original data submitter

Sample

source_name
Brown adipose tissue
tissue
Brown adipose tissue
time
5pm
strain
C57BL/6
genotype
WT
temperature
30°C
chip antibody
Input

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Murine BAT was collected immediately after euthanasia. It was quickly minced and cross-linked in 1% formaldehyde for 20 min, followed by quenching with 1/20 volume of 2.5 M glycine solution and two washes with ice-cold PBS. Chromatin fragmentation was performed by sonication in ChIP SDS lysis buffer (50 mM HEPES, 1% SDS, 10 mM EDTA, pH 7.5) using probe sonication. Proteins were immunoprecipitated in ChIP dilution buffer (50 mM HEPES, 155 mM NaCl, 1.1% Triton X-100, 0.11% sodium-deoxycholate, complete protease inhibitor tablet, pH 7.5). Crosslinking was reversed overnight at 65 °C in elution buffer (50 mM Tris-HCL, 10 mM EDTA, 1% SDS, pH 8.0) and DNA was isolated using phenol/chloroform/isoamyl alcohol. Precipitated DNA was analysed by quantitative PCR. ChIP DNA was prepared for sequencing according to the amplification protocol provided by Illumina.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
101964605
Reads aligned (%)
99.5
Duplicates removed (%)
72.2
Number of peaks
1060 (qval < 1E-05)

mm9

Number of total reads
101964605
Reads aligned (%)
99.4
Duplicates removed (%)
72.2
Number of peaks
1032 (qval < 1E-05)

Base call quality data from DBCLS SRA