Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Adipocyte
Cell type
White adipocytes
NA
NA

Attributes by original data submitter

Sample

source_name
Epididymal white adipose tissue
tissue
Epididymal white adipose tissue
time
5pm
strain
C57BL/6
gender
male
age
12-15 weeks-old
chip antibody
Input

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Mice were euthanized, and tissue was harvested immediately, 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 PBS. Cell lysates with fragmented chromatin were prepared by probe sonication in ChIP dilution buffer (50mMHEPES, 155mMNaCl, 1.1% Triton X-100, 0.11% sodium deoxycholate, 0.1% SDS, 1mM phenylmethylsulfonyl fluoride [PMSF], and a complete protease inhibitor tablet [pH 7.5]). ChIP was performed using 2-10 µg of antibodies. For ChIP-seq, material from three to four mice was pooled prior to library generation. ChIP DNA was prepared for sequencing according to the amplification protocol provided by Illumina.

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

mm10

Number of total reads
13257190
Reads aligned (%)
97.7
Duplicates removed (%)
21.3
Number of peaks
229 (qval < 1E-05)

mm9

Number of total reads
13257190
Reads aligned (%)
97.5
Duplicates removed (%)
21.5
Number of peaks
279 (qval < 1E-05)

Base call quality data from DBCLS SRA