Antigen

Antigen Class

ATAC-Seq

Antigen

ATAC-Seq

Cell type

Cell type Class

Blood

Cell type

Dendritic Cells

MeSH Description

ANTIGEN-PRESENTING CELLS of dendritic cell morphology found in the LYMPH NODES and other lymphoid tissues.

Sample

dev stage

unknown

cell type

dendritic cell

treatments

treatment_term_id: CHEBI:16412; treatment_term_name: Lipopolysaccharide; treatment_type: chemical; duration: 2; duration_units: hour;

sex

not collected

sample type

in vitro differentiated cells

donor ID

ENCDO521EVK

age

unknown

lab

Manuel Garber, UMass

Sequenced DNA Library

library_strategy

ATAC-seq

library_source

GENOMIC

library_selection

other

library_construction_protocol

general protocol: https://www.encodeproject.org/documents/8ddcf49f-5e65-4158-b21c-b1b2620ef7b8/@@download/attachment/ATAC%20modified%20protocol.pdf extraction method: ATAC-seq (Greenleaf & Chang Lab protocol)

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

132023950

Reads aligned (%)

96.8

Duplicates removed (%)

12.9

Number of peaks

113574 (qval < 1E-05)

hg19

Number of total reads

132023950

Reads aligned (%)

96.3

Duplicates removed (%)

13.3

Number of peaks

115642 (qval < 1E-05)