Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
PPARG

Cell type

Cell type Class
Adipocyte
Cell type
Adipocytes
MeSH Description
Cells in the body that store FATS, usually in the form of TRIGLYCERIDES. WHITE ADIPOCYTES are the predominant type and found mostly in the abdominal cavity and subcutaneous tissue. BROWN ADIPOCYTES are thermogenic cells that can be found in newborns of some species and hibernating mammals.

Attributes by original data submitter

Sample

source_name
Adipocytes
agent
none
cell type
hASC-derived adipocytes
chip antibody
PPARg(Santa Cruz Biotechnology, Cat# sc-7196)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Total RNA was extracted by using Qiagen RNeasey Mini kit. Ribosomal RNA was depleted by Ribo-Zero gold kit. DNA was isolated using phenol/chloroform extraction and NaCl/EtOH precipitated with 20 μg glycogen carrier. RNA libraries were prepared for sequencing using TruSeq RNA Sample Prep Kit. ChIP-seq library was prepared for sequencing according to the amplification protocol from Illumina.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
57547022
Reads aligned (%)
20.7
Duplicates removed (%)
73.5
Number of peaks
9674 (qval < 1E-05)

hg38

Number of total reads
57547022
Reads aligned (%)
21.5
Duplicates removed (%)
72.6
Number of peaks
9669 (qval < 1E-05)

Base call quality data from DBCLS SRA