Antigen

Antigen Class

RNA polymerase

Antigen

RNA polymerase II

Cell type

Cell type Class

Neural

Cell type

Corpus Striatum

MeSH Description

Striped GRAY MATTER and WHITE MATTER consisting of the NEOSTRIATUM and paleostriatum (GLOBUS PALLIDUS). It is located in front of and lateral to the THALAMUS in each cerebral hemisphere. The gray substance is made up of the CAUDATE NUCLEUS and the lentiform nucleus (the latter consisting of the GLOBUS PALLIDUS and PUTAMEN). The WHITE MATTER is the INTERNAL CAPSULE.

Sample

source_name

Mouse striatum

tissue

striatum

strain

C57BL/6J

age

4 months

htt genotype

Q111/+

gender

male

chip antibody

Anti-RNA polymerase II CTD repeat YSPTSPS antibody [8WG16] (Abcam #ab817 [ChIP grade])

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Striatal tissue was homogenized in glass dounce and fixed with formaldehyde for 10 min at room temperature. Chromatin was fragmented using MNase digestion followed by sonication. SMAD3- or RNA Pol2-DNA complexes were isolated using antibody. Modified ChIP-seq (see PMID 22025700)

Sequencing Platform

instrument_model

Illumina HiSeq 2500

mm10

Number of total reads

33522763

Reads aligned (%)

85.4

Duplicates removed (%)

3.8

Number of peaks

539 (qval < 1E-05)

mm9

Number of total reads

33522763

Reads aligned (%)

85.3

Duplicates removed (%)

4.1

Number of peaks

538 (qval < 1E-05)