Antigen

Antigen Class

TFs and others

Antigen

Rorc

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

strain

C57BL/6

cell type

Th17 cells

genotype/variation

wildtype

agent

TMP920 (10uM)

antibody

Anti-RORgamma(t), eBioscience, AFKJS-9, 14-6988, E11084-325

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

~50-100 x 106 cells for each ChIP were crosslinked with formaldehyde, lysed, and fragmented with a Misonix Sonicator 3000. Following immunoprecipitation with antibody or IgG control, the protein-DNA crosslinks were reversed and DNA was purified and used for the preparation of Illumina sequencing libraries Purified ChIP DNA was used to prepare ChIP-seq libraries using the Illumina TruSeq DNA Sample Preparation v2 kit

Sequencing Platform

instrument_model

Illumina Genome Analyzer II

mm10

Number of total reads

25812293

Reads aligned (%)

74.8

Duplicates removed (%)

36.7

Number of peaks

1097 (qval < 1E-05)

mm9

Number of total reads

25812293

Reads aligned (%)

74.6

Duplicates removed (%)

36.8

Number of peaks

1200 (qval < 1E-05)