Antigen

Antigen Class

ATAC-Seq

Antigen

ATAC-Seq

Cell type

Cell type Class

Neural

Cell type

Microglia

MeSH Description

The third type of glial cell, along with astrocytes and oligodendrocytes (which together form the macroglia). Microglia vary in appearance depending on developmental stage, functional state, and anatomical location; subtype terms include ramified, perivascular, ameboid, resting, and activated. Microglia clearly are capable of phagocytosis and play an important role in a wide spectrum of neuropathologies. They have also been suggested to act in several other roles including in secretion (e.g., of cytokines and neural growth factors), in immunological processing (e.g., antigen presentation), and in central nervous system development and remodeling.

Sample

source_name

microglia

donor/fetus

2018-37

Sequenced DNA Library

library_strategy

ATAC-seq

library_source

GENOMIC

library_selection

other

library_construction_protocol

After cell lysis, ATAC-sequencing libraries were generated according to the manufacturer's protocol of the Nextera DNA Sample Preparation Kit (Illumina, FC-121-1030). Per 80,000 cells, 50 µl tagmentation mix was added. Samples were sequenced on an Illumina NextSeq 500 using 75 bp paired-end reads..

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

39826867

Reads aligned (%)

97.7

Duplicates removed (%)

15.4

Number of peaks

10372 (qval < 1E-05)

hg19

Number of total reads

39826867

Reads aligned (%)

97.2

Duplicates removed (%)

15.6

Number of peaks

10320 (qval < 1E-05)