Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
Th17 Cells
MeSH Description
A subset of helper-effector T-lymphocytes which synthesize and secrete INTERLEUKINS IL-17; IL-17F; and IL-22. These cytokines are involved in host defenses and tissue inflammation in autoimmune diseases.

Attributes by original data submitter

Sample

source_name
Sample_Th17_input
strain
C57BL/6
cell type
primary T cells
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Whole cell lysates were sonicated and protein-DNA complexes were isolated with antibodies. ChIP-DNA was end repaired with T4 DNA polymerase and polynucleotide kinase. An A-base was added to the end-repaired DNA fragments. Solexa adaptors were ligated to the ChIP DNA fragments and 200-300bp size fractions were excised from 2% agarose gel stained with GelStar. Adaptor-modified fragments were enriched by 16 cycles of PCR amplification. The DNA library prep was validated in Bioanalyzer for quantity and size.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
39492186
Reads aligned (%)
88.0
Duplicates removed (%)
33.3
Number of peaks
947 (qval < 1E-05)

mm9

Number of total reads
39492186
Reads aligned (%)
88.0
Duplicates removed (%)
33.4
Number of peaks
909 (qval < 1E-05)

Base call quality data from DBCLS SRA