Antigen

Antigen Class

Unclassified

Antigen

Unclassified

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

N9 microglia

treatment

Hypoxia

passages

3-9

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For ChIP-seq, lysates were sonicated manually and cleared prior to antibody incubation.For RNA seq, cells were lysed in Trizol. ChIP-seq libraries prepared according to Illumina's instructions; RNA stranded libraries prepared according to Illumina protocols

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

81129057

Reads aligned (%)

87.3

Duplicates removed (%)

13.9

Number of peaks

3324 (qval < 1E-05)

mm9

Number of total reads

81129057

Reads aligned (%)

87.0

Duplicates removed (%)

13.8

Number of peaks

3775 (qval < 1E-05)