Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Neural
Cell type
HT22
NA
NA

Attributes by original data submitter

Sample

source_name
HT22
cell line
neuronal cell line HT22
genotype
HT22-BirA
transfection
pTO-Klf13Bio plasmid to express a biotinylated form of KLF13
ip protocol
Chromatin streptavidin precipitation

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were washed, crosslinked with 1 % paraformaldehyde and chromatin extracted and sonicated using an M220 Focused-Ultrasonicator (Covaris) for 20 min with a 5 % duty factor. The chromatin shearing (200-600 bp) was confirmed by agarose gel electrophoresis. DNA libraries were prepared by the University of Michigan DNA Sequencing Core.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
28652213
Reads aligned (%)
97.4
Duplicates removed (%)
20.9
Number of peaks
409 (qval < 1E-05)

mm9

Number of total reads
28652213
Reads aligned (%)
97.2
Duplicates removed (%)
21.0
Number of peaks
445 (qval < 1E-05)

Base call quality data from DBCLS SRA