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

donor ID

ENCDO088AAA

age

unknown

sex

not collected

lab

Manuel Garber, UMass

cell type

dendritic cell

treatments

treatment_term_id: CHEBI:16412; treatment_term_name: Lipopolysaccharide; treatment_type: chemical; duration: 4; duration_units: hour;

sample type

in vitro differentiated cells

Sequenced DNA Library

library_strategy

ATAC-seq

library_source

GENOMIC

library_selection

other

library_construction_protocol

general protocol: https://www.encodeproject.org/documents/860c95a8-fdc4-46bd-b9b5-d44242ff20ef/@@download/attachment/ATAC_garberlab_protocol.pdf extraction method: ATAC-seq (Greenleaf & Chang Lab protocol)

Sequencing Platform

instrument_model

NextSeq 500

mm10

Number of total reads

124407420

Reads aligned (%)

97.4

Duplicates removed (%)

52.7

Number of peaks

24113 (qval < 1E-05)

mm9

Number of total reads

124407420

Reads aligned (%)

97.3

Duplicates removed (%)

52.9

Number of peaks

24077 (qval < 1E-05)