Diagenode

>>>   Click for Diagenode’s approach to COVID-19

Chromosome contacts in activated T cells identify autoimmune disease candidate genes


Burren OS et al.

BACKGROUND:

Autoimmune disease-associated variants are preferentially found in regulatory regions in immune cells, particularly CD4+ T cells. Linking such regulatory regions to gene promoters in disease-relevant cell contexts facilitates identification of candidate disease genes.

RESULTS:

Within 4 h, activation of CD4+ T cells invokes changes in histone modifications and enhancer RNA transcription that correspond to altered expression of the interacting genes identified by promoter capture Hi-C. By integrating promoter capture Hi-C data with genetic associations for five autoimmune diseases, we prioritised 245 candidate genes with a median distance from peak signal to prioritised gene of 153 kb. Just under half (108/245) prioritised genes related to activation-sensitive interactions. This included IL2RA, where allele-specific expression analyses were consistent with its interaction-mediated regulation, illustrating the utility of the approach.

CONCLUSIONS:

Our systematic experimental framework offers an alternative approach to candidate causal gene identification for variants with cell state-specific functional effects, with achievable sample sizes.

Tags
IP-Star
Antibody

Share this article

Published
September, 2017

Source

Products used in this publication

  • Compact Automated System
    B03000002
    SX-8G IP-Star® Compact Automated System
  • cut and tag antibody icon
    C15410196
    H3K27ac polyclonal antibody
  • cut and tag antibody icon
    C15410195
    H3K27me3 polyclonal antibody
  • ChIP-seq Grade
    C15410192
    H3K36me3 polyclonal antibody
  • cut and tag antibody icon
    C15410194
    H3K4me1 polyclonal antibody
  • Histone-Deacetylase-polyclonal-antibody-diagenode
    C15410003-50
    H3K4me3 polyclonal antibody
  • cut and tag antibody icon
    C15410193
    H3K9me3 polyclonal antibody
  • ChIP kit icon
    C05010020
    iDeal Library Preparation Kit x24 (incl. Index ...

イベント

  • ChIP workshop
    Diagenode
    Sep 21-Sep 22, 2021
  • DNA methylation workshop: Master MeDIP assay
    Diagenode
    Sep 30, 2021
  • DNA methylation workshop: Become an expert at RRBS
    Diagenode
    Oct 1-Oct 31, 2021
 すべてのイベントを見る

ニュース

 すべてのニュースを見る


The European Regional Development Fund and Wallonia are investing in your future.

Extension of industrial buildings and new laboratories.



  ABOUT SSL CERTIFICATES

       Site map   |   Contact us   |   Conditions of sales   |   Conditions of purchase   |   Privacy policy   |   Diagenode Diagnostics