Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Adipocyte
Cell type
Visceral adipocytes
NA
NA

Attributes by original data submitter

Sample

source_name
visceral adipocytes
chip antibody
H3K4me3, abcam ab8580

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP mature adipocyte cells were crosslinked with 1% formaldehyd for 10 min and sonicated to 200 bps. Genomic DNA was extracted using antibodies for H3K4me3, H3K9me3 and H3K27ac. The libraries for ChIP-Seq were preparated using the MicroPlex Library preparation kit (Diagenode) and purified with Agencourt AMPure XP beads (Beckman Coulter Life Sciences, Krefeld, Germany).

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg38

Number of total reads
38552062
Reads aligned (%)
98.5
Duplicates removed (%)
16.2
Number of peaks
29463 (qval < 1E-05)

hg19

Number of total reads
38552062
Reads aligned (%)
97.3
Duplicates removed (%)
18.7
Number of peaks
28876 (qval < 1E-05)

Base call quality data from DBCLS SRA