Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Blood

Cell type

Th2 Cells

MeSH Description

A subset of helper-inducer T-lymphocytes which synthesize and secrete the INTERLEUKINS IL-4; IL-5; IL-6; and IL-10. These cytokines influence B-cell development and antibody production as well as augmenting humoral responses.

Sample

source_name

Naïve CD4 T cells from spleen cultured for 5 days in Th2 polarizing conditions

strain

C57BL/6

tissue

spleen

cell type

Naive (CD44lowCD62Lhigh) CD4+ T cells

cell subtype

Th2 cells

chip antibody

Rabbit IgG polyclonal

chip antibody vendor

Southern Biotech

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody. IP and input sample libraries were prepared using ChIP-Seq Sample Prep kit (Illumina). Adaptor-ligated DNA fragments were size fractionated by 12% acrylamide gel, and the 170- to 250-bp fraction was recovered. DNA thus obtained was amplified by 18 cycles of PCR. One nanogram of DNA was used for the sequencing reaction of the Illumina GAIIx, according to the manufacturer’s instructions. A total of 250,000–370,000 clusters was generated per tile, and 36 cycles of the sequencing reactions were performed.

Sequencing Platform

instrument_model

Illumina Genome Analyzer IIx

mm10

Number of total reads

37435268

Reads aligned (%)

73.5

Duplicates removed (%)

41.4

Number of peaks

680 (qval < 1E-05)

mm9

Number of total reads

37435268

Reads aligned (%)

73.3

Duplicates removed (%)

41.5

Number of peaks

760 (qval < 1E-05)