Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Neural

Cell type

Astrocytes

MeSH Description

A class of large neuroglial (macroglial) cells in the central nervous system - the largest and most numerous neuroglial cells in the brain and spinal cord. Astrocytes (from "star" cells) are irregularly shaped with many long processes, including those with "end feet" which form the glial (limiting) membrane and directly and indirectly contribute to the BLOOD-BRAIN BARRIER. They regulate the extracellular ionic and chemical environment, and "reactive astrocytes" (along with MICROGLIA) respond to injury.

Sample

source_name

Astrocyte cell line

cell line

Astrocyte

derivation

EGFRvIII-expressing astrocytes were established as previously described (de La Iglesia et al 2008, Genes and Dev, 22(4):449-62.).

genotype/variation

EGFRvIII expressing

chip antibody

IgG (Millipore, Cat # 12-370)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Chromatin was immunoprecipitated using rabbit IgG (Millipore, Cat # 12-370). Antibody–protein–DNA complexes were collected, washed and eluted and the crosslinks were reversed The quality of RNA was assessed by bioanalyzer prior to sequencing. Libraries were prepared according to Illumina protocols.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

77224057

Reads aligned (%)

96.4

Duplicates removed (%)

23.7

Number of peaks

807 (qval < 1E-05)

mm9

Number of total reads

77224057

Reads aligned (%)

96.2

Duplicates removed (%)

23.7

Number of peaks

883 (qval < 1E-05)