Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me2

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
Adult microglia k4me2
strain
CX3CR1-GFP+ C57BL/6J
tissue
Brain
cell type
Adult microglia
chip antibody
K4me2 (Abcam, #ab32356)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Lara-Astiaso D, Weiner A, Lorenzo-Vivas E, Zaretsky I et al. Immunogenetics. Chromatin state dynamics during blood formation. Science 2014 Aug 22;345(6199):943-9. PMID: 25103404 indexing-first chromatin immunoprecipitation and ATAC-seq

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
64172989
Reads aligned (%)
97.7
Duplicates removed (%)
49.7
Number of peaks
31740 (qval < 1E-05)

mm9

Number of total reads
64172989
Reads aligned (%)
97.6
Duplicates removed (%)
50.5
Number of peaks
31773 (qval < 1E-05)

Base call quality data from DBCLS SRA