Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
Thymus
NA
NA

Attributes by original data submitter

Sample

source_name
whole_cell_extract_TEC-cluster-1-3-B
enrichment
CD45-Epcam+MHCIIlowItgb4+
tissue
Thymus
strain
C57BL/6
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Murine thymi were treated with enzymes cocktail (Collagenase, Dispase and Dnase) at 37C. Cells were separated by Percoll gradient density centrifugation, filtered, stained with Flow cytometry antibodies and cross linked with Formaldehyde. High troughput ChIP, developed from the iChIP protocol (Lara-Astiaso, Weiner et al. Science 2014)

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
9907791
Reads aligned (%)
96.5
Duplicates removed (%)
75.8
Number of peaks
73 (qval < 1E-05)

mm9

Number of total reads
9907791
Reads aligned (%)
96.3
Duplicates removed (%)
76.5
Number of peaks
72 (qval < 1E-05)

Base call quality data from DBCLS SRA