Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Smc3

Cell type

Cell type Class
Blood
Cell type
CD4 CD8 double negative cells
NA
NA

Attributes by original data submitter

Sample

source_name
in-vitro DN2 cells
strain
C57BL/6
genotype
WT
chip antibody
SMC3 (Abcam, ab9263, GR290533-3)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lived DN2 cells were selected on day10. Cells were cultured as control without OP9-DL1 n aMEM 20% FBS, IL7, FLT3-L, without actinomycin-d . Cells were harvested at 30 min, immediately spun down, and resuspended in PBS. Cells were fixed with 1% formaldehyde. Formaldehyde was quenched with 0.2 M glycine for 10 min. Fixed cells were stored at -80 degrees until use. Libraries were prepared with NEBNext primer set. Fragment size was selected with AMPure beads (Beckman Coulter).

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
65911453
Reads aligned (%)
98.1
Duplicates removed (%)
17.5
Number of peaks
25580 (qval < 1E-05)

mm9

Number of total reads
65911453
Reads aligned (%)
97.8
Duplicates removed (%)
17.4
Number of peaks
25576 (qval < 1E-05)

Base call quality data from DBCLS SRA