Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27me3

Cell type

Cell type Class
Neural
Cell type
Neural Stem Cells
MeSH Description
Self-renewing cells that generate the main phenotypes of the nervous system in both the embryo and adult. Neural stem cells are precursors to both NEURONS and NEUROGLIA.

Attributes by original data submitter

Sample

source_name
Neural stem cells
cell type
Neural stem cells
strain
C57BL/6 129/Castaneus mix
Sex
female
genotype
Smchd1 del/fl Xist 129-KO/Xist WT-Cast
chip antibody
Millipore anti-H3K27me3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclei were isolated from formaldehyde crosslinked NSCs and chromatin was fragmented by sonication. Chromatin immunoprecipitation was performed with corresponding antibodies. DNA was extracted from the immunoprecipitated fraction following reverse-crosslinking. Libraries were prepared according to standard Illumina Tru-seq library protocols

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
43995485
Reads aligned (%)
0.0
Duplicates removed (%)
42.1
Number of peaks
813 (qval < 1E-05)

mm9

Number of total reads
43995485
Reads aligned (%)
0.0
Duplicates removed (%)
42.2
Number of peaks
800 (qval < 1E-05)

Base call quality data from DBCLS SRA