Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

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.

Attributes by original data submitter

Sample

source_name
Microglial cells
strain
C57BL/6
tissue
Cortex
cell type
Microglial cells
age
postnatal day 1
genotype
WT
treatment
Control
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells grown on 10-cm dishes were fixed with 1% formaldehyde-containing medium for 10 min and were quenched by glycine. Collected samples were then subjected to ChIP assay using anti-H3K4me1 (MBL, MABI0302), anti-H3K4me3 (MBL, MABI0304), anti-H3K27me3 (MBL, MABI0323), anti-H3K27ac (MBL, MABI0309S) antibodies. Sequencing libraries were made using the NEBNext ChIP-Seq Library Prep Master Mix Set for Illumina

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
39982870
Reads aligned (%)
99.4
Duplicates removed (%)
9.0
Number of peaks
372 (qval < 1E-05)

mm9

Number of total reads
39982870
Reads aligned (%)
99.2
Duplicates removed (%)
9.0
Number of peaks
375 (qval < 1E-05)

Base call quality data from DBCLS SRA