Antigen

Antigen Class

TFs and others

Antigen

Nkx2-1

Cell type

Cell type Class

Neural

Cell type

Basal Ganglia

MeSH Description

Large subcortical nuclear masses derived from the telencephalon and located in the basal regions of the cerebral hemispheres.

Sample

source_name

Basal ganglia

strain

CD-1

chip antibody

NKX2-1 polyclonal (Santa Cruz Biotechnology #sc-13040 RRID:AB_10015210)

genotype

Wildtype

age

embryonic day 13.5

tissue

Basal ganglia

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Tissue was micro-dissected and prepared for TF or native ChIP, cross-linked, and sheared. Protein/antibody complexes were isolated with antibodies and collected using Dynabeads. ChIP-seq libraries were generated using the Ovation Ultralow DR Multiplex System (NuGEN #0330).

Sequencing Platform

instrument_model

Illumina HiSeq 2500

mm10

Number of total reads

129479353

Reads aligned (%)

93.7

Duplicates removed (%)

14.1

Number of peaks

773 (qval < 1E-05)

mm9

Number of total reads

129479353

Reads aligned (%)

93.5

Duplicates removed (%)

14.0

Number of peaks

944 (qval < 1E-05)