Multi-omics-based identification of atopic dermatitis target genes and their potential associations with metabolites and miRNAs

Animesh Acharjee, Elizaveta Gribaleva, Subia Bano, Georgios V Gkoutos

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Abstract

Atopic dermatitis (AD), or atopic eczema, is one of the most common inflammatory skin diseases with up to 10% prevalence in adults, and approximately 15-20% in children in industrialized countries. As a result, there is an unmet need for faster, safer, and effective treatments for AD. AD pathogenesis represents a complex interplay between multiple factors, such as environmental factors or stimuli, genetic factors, immune dysfunctions. However, although multi-omics label studies have been very useful in understanding the pathophysiological mechanisms of AD and its clinical manifestations, there have been very few studies that integrate different labels of omics data. Here, we attempted to integrate gene expression and metabolomics datasets from multiple different publicly available AD cohort datasets and conduct an integrated systems-level AD analysis. We used four different GEO transcriptome data sets and, by applying an elastic net machine learning algorithm, identified robust hub genes that can be used as signatures, for example, H2AFX, MCM7, ESR1 and SF3A2. Moreover, we investigated potential associations of those genes by applying a pathway-based approach over metabolomics and miRNA datasets. Our results revealed potential novel associations between fatty acids and peroxisomal lipid metabolism pathways, as well as with several microRNAs.

Original languageEnglish
Pages (from-to)13697-13709
JournalAmerican Journal of Translational Research
Volume13
Issue number12
Early online date15 Dec 2021
Publication statusPublished - 30 Dec 2021

Keywords

  • Multi-omics
  • machine learning
  • atopic dermatitis (AD)
  • eczema
  • pathway analysis
  • translational research

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