Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Dlx1

Cell type

Cell type Class
Embryo
Cell type
Embryonic hypothalamus
NA
NA

Attributes by original data submitter

Sample

source_name
Mouse Hypothalamus
cell type
E16 embryo brain
tissue
Mouse Hypothalamus
strain
C57BL/6
chip antibody
Dlx1 made by Bora Lee

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
To perform the ChIP assays with mouse embryonic tissues, we dissected E16 hypothalamuses. The tissues were dissociated completely, fixed by 1% formaldehyde for 10 min at room temperature, and quenched by 125 mM glycine. Next, cells were washed with PBS and lysed with lysis buffer (0.5% SDS, 5 mM EDTA, 50 mM Tris-HCl, pH 8.0, Protease inhibitor cocktail) and were subjected to sonication using bioruptor. Supernatant was incubated with Dlx1 homemade antibody and protein A agarose beads to precipitate the hexamer/chromatin complex for overnight at 4°C. ChIP-seq libraries were constructed with the llumina's instructions accompanying the DNA Sample Kit. Libraries were sequenced on the Genome Analyzer following the manufacturer's protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
54054228
Reads aligned (%)
97.3
Duplicates removed (%)
13.0
Number of peaks
460 (qval < 1E-05)

mm9

Number of total reads
54054228
Reads aligned (%)
97.2
Duplicates removed (%)
13.0
Number of peaks
465 (qval < 1E-05)

Base call quality data from DBCLS SRA