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.

Sample

source_name

Th17 cells

differentiated cell type

Primary Th17 cells

extracted cell type

naive CD4+T cells

tissue

spleen and lymph nodes

differentiation status

In vitro differentiated

strain

C57BL/6

chip antibody

none

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Lysates were clarified from sonicated nuclei and Trim33 complexes were isolated with antibody. Libraries were prepared according to KAPA's instructions accompanying the KAPA hyper prep kit. Briefly, DNA was subjected to end-repaire and A-tailing to produce 5'-phosphorylated, 3'-dA-tailed dsDNA fragment. Illumina's adapters with 3'-dTMP overhangs are ligated to 3'-dA-tailed molecules. After adapter ligation, DNA was PCR amplified with Illumina primers and library fragments of 50~400 bp (insert plus adaptor and PCR primer sequences) were isolated with AMpure XP beads (Beckman Coulter). The purified DNA was captured on an Illumina flow cell for cluster generation. Libraries were sequenced on the Illumina Hiseq 2000 following the manufacturer's protocols.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

45485299

Reads aligned (%)

99.4

Duplicates removed (%)

20.7

Number of peaks

382 (qval < 1E-05)

mm9

Number of total reads

45485299

Reads aligned (%)

99.3

Duplicates removed (%)

20.8

Number of peaks

370 (qval < 1E-05)