Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Notch1

Cell type

Cell type Class
Blood
Cell type
Gamma delta T cells
NA
NA

Attributes by original data submitter

Sample

source_name
Primary gd T cells
strain
C57BL/6
tissue
thymus
age
post natal day 0-3
genotype
wild type
chip antibody
Rabbit Notch1 mAb (D1E11, Cell Signaling Technology)
cell type
gamma delta T cells

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cellular lysate was prepared by sonication in detergent-containing buffer after fixation with 0.5% formaldehyde at room temperature for 5min, and then DNA/protein complex was obtained by enzymatic digestion. To repair ChIP-DNA and input-DNA ends, T4 DNA polymerase, Klenow enzyme and T4 polynucleotide kinase were used (New England Biolabs), and an A base was subsequently added to the 3'-end by the treatment of Klenow exo-. The adaptor ligation and the PCR amplification for 18 cycles of DNA fragments were performed with NEB Next Multiplex Oligos for Illumina (Index Primers Set1).

Sequencing Platform

instrument_model
Illumina HiSeq 1500

mm10

Number of total reads
41216801
Reads aligned (%)
90.5
Duplicates removed (%)
87.4
Number of peaks
243 (qval < 1E-05)

mm9

Number of total reads
41216801
Reads aligned (%)
90.3
Duplicates removed (%)
87.5
Number of peaks
236 (qval < 1E-05)

Base call quality data from DBCLS SRA