Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
Dendritic Cells
MeSH Description
ANTIGEN-PRESENTING CELLS of dendritic cell morphology found in the LYMPH NODES and other lymphoid tissues.

Attributes by original data submitter

Sample

source_name
dendritic cells, D1 curdlan Input
cell type
splenic long term dendritic cells
strain
C57BL/6
treatment/control
control

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei andNFAT1-v5-DNA complexes were isolated with antibody. Illumina TruSeq DNA version 2 kit according to the manufacturer's protocol, with the following modifications; 30X adaptor dilution, 18 PCR cycles of amplification. Batches of 5-8 samples were sequenced as a multiplex in individual lanes of an Illumina HiSeq 2000 apparatus using a single-end run (1X51) together with the SBS kit v3. Reads were mapped to the mouse genome (version mm9) with bowtie 1 (Langmead et al., 2009) using default parameters.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
33650191
Reads aligned (%)
97.9
Duplicates removed (%)
61.4
Number of peaks
225 (qval < 1E-05)

mm9

Number of total reads
33650191
Reads aligned (%)
97.6
Duplicates removed (%)
61.5
Number of peaks
381 (qval < 1E-05)

Base call quality data from DBCLS SRA