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Overexpressing Long Noncoding RNAs Using Gene-activating CRISPR

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Published on: March 1, 2019

Large-scale functional inference for skin-expressing lncRNAs using expression and sequence information.

Matthew T Patrick¹, Sutharzan Sreeskandarajan^1,2, Alanna Shefler¹

¹Department of Dermatology, Michigan Medicine, University of Michigan, Ann Arbor, Michigan, USA.

|December 22, 2023

Summary

This summary is machine-generated.

Long noncoding RNAs (lncRNAs) are crucial in inflammatory skin diseases. This study identifies specific lncRNAs and their DNA binding domains, revealing their roles in skin immunity and disease.

Keywords:

Bioinformatics Dermatology Genetic variation Genetics Skin

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Area of Science:

Genomics
Immunology
Dermatology

Background:

Long noncoding RNAs (lncRNAs) regulate gene expression and are implicated in inflammatory skin diseases.
Understanding lncRNA function in skin is limited due to tissue specificity and low expression.

Purpose of the Study:

To comprehensively analyze lncRNA expression and function in inflammatory skin conditions.
To identify specific lncRNAs and their DNA binding domains involved in skin immunity.

Main Methods:

Compiled a dataset of 18,517 lncRNAs and analyzed expression profiles from 834 RNA-Seq samples.
Employed a random forest model to predict biological functions and identify DNA binding domains (DBDs).
Utilized single-cell and spatial sequencing for cell type specificity validation.

Main Results:

Identified significant DBDs for 39 lncRNAs, with a median AUROC of 0.79.
Discovered a lncRNA (G18244) correlated with macrophage regulation gene F13A1 and identified a DBD.
Found lncRNAs AC090198.1 and AC005332.6 negatively correlated with atopic dermatitis severity (SCORAD).

Conclusions:

lncRNAs play significant immunological roles in skin.
This research provides a framework for prioritizing lncRNAs in inflammatory skin disease research.
Identified lncRNAs offer potential therapeutic targets for skin inflammatory conditions.