Antigen

Antigen Class

ATAC-Seq

Antigen

ATAC-Seq

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.

Sample

source_name

Human white adipocytes (Ad)

cell type

In vitro differentiated adipocytes (Ad)

passage

4

treatment

n/a

Sequenced DNA Library

library_strategy

ATAC-seq

library_source

GENOMIC

library_selection

other

library_construction_protocol

We performed the ATAC-seq protocol in the untreated primary human adipocytes (Ad) in 300,000 nuclei in three biological replicates similarly as in [Buenrostro et al. 2013 Nat Methods] except we used 0.03-0.1% Tween-20 in place of NP40 for the lysis buffer. After washing adherent cells with ice-cold PBS, we lysed the cells directly in the culture plate and performed transposition and DNA purification. Tagmented DNA samples were prepared for high-throughput sequencing as described in [Buenrostro et al. 2013 Nat Methods]

Sequencing Platform

instrument_model

Illumina HiSeq 4000

hg38

Number of total reads

63764322

Reads aligned (%)

81.8

Duplicates removed (%)

28.7

Number of peaks

108097 (qval < 1E-05)

hg19

Number of total reads

63764322

Reads aligned (%)

81.5

Duplicates removed (%)

28.8

Number of peaks

107639 (qval < 1E-05)