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Related Concept Videos

Genome-wide Association Studies-GWAS01:11

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Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
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RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
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Author Spotlight: Advancing Allergic Rhinitis Research with Multicolor Immunofluorescence
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Combining omics data to identify genes associated with allergic rhinitis.

Andréanne Morin1,2, Michel Laviolette3, Tomi Pastinen1

  • 1Department of Human Genetics, McGill University and Genome Quebec Innovation Centre, 740 Dr. Penfield Avenue, Montréal, Québec H3A 1A5 Canada.

Clinical Epigenetics
|February 3, 2017
PubMed
Summary
This summary is machine-generated.

Researchers identified new genes linked to allergic rhinitis using genome-wide association studies. The caudal-type homeobox 1 (CDX1) gene showed a significant cis-methylation quantitative trait loci (mQTL) association.

Keywords:
Allergic rhinitisAsthmaEWASGWASOmicsmQTLs

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Area of Science:

  • Genetics
  • Immunology
  • Epigenetics

Background:

  • Allergic rhinitis is a prevalent chronic condition driven by immunoglobulin E-mediated inflammation.
  • Identifying genetic and epigenetic factors is crucial for understanding allergic rhinitis.
  • Current research seeks novel genetic associations beyond stringent statistical thresholds.

Purpose of the Study:

  • To discover novel genes associated with allergic rhinitis.
  • To investigate the role of cis-methylation quantitative trait loci (mQTLs) in allergic rhinitis.
  • To integrate genome-wide and epigenome-wide data for comprehensive gene discovery.

Main Methods:

  • Performed genome-wide and epigenome-wide association studies.
  • Identified cis-mQTLs by linking CpGs in genes/promoters with nearby SNPs.
  • Utilized a functional cellular approach focusing on marginal significance (p < 0.05).

Main Results:

  • Identified caudal-type homeobox 1 (CDX1) with a significant cis-mQTL for allergic rhinitis.
  • Found 11 additional genes with marginally significant cis-mQTLs, including RNF39 (associated with allergic rhinitis with or without asthma).
  • Observed that linked SNPs were often not the closest to the associated gene, including the SNP linked to CDX1.

Conclusions:

  • Combined omics data successfully identified novel genes associated with allergic rhinitis.
  • The study highlights the utility of cis-mQTL analysis for uncovering gene associations in complex traits.
  • Findings provide new insights into the genetic architecture of allergic rhinitis and its related SNPs.