Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Placenta
Cell type
Trophoblast stem cells
NA
NA

Attributes by original data submitter

Sample

source_name
TS cell
strain background
mixed
cell type
Trophoblast stem (TS) cells
passages
passage 25-40

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP DNA samples were obtained with Native ChIP protocol; briefly, chromatin were fractionated and then subject to Mnase digestion to generate mononucleosomes. Then the mononucleosome fraction was extracted with high salt buffer and H2A.X-containing nucleosomes were isolated and enriched with anti-H2A.X (custom-made) antibodies. Libraries were prepared according to Illumina's standard protocol, with instructions accompanying the DNA Sample Kit

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
16624664
Reads aligned (%)
97.4
Duplicates removed (%)
10.5
Number of peaks
208 (qval < 1E-05)

mm9

Number of total reads
16624664
Reads aligned (%)
97.1
Duplicates removed (%)
10.5
Number of peaks
217 (qval < 1E-05)

Base call quality data from DBCLS SRA