Psoriasis-Specific RNA Isoforms Identified by RNA-Seq Analysis of 173,446 Transcripts



Koks, Sulev ORCID: 0000-0001-6087-6643, Keermann, Maris, Reimann, Ene, Prans, Ele, Abram, Kristi, Silm, Helgi, Koks, Gea and Kingo, Kulli
(2016) Psoriasis-Specific RNA Isoforms Identified by RNA-Seq Analysis of 173,446 Transcripts. FRONTIERS IN MEDICINE, 3 (OCT). 46-.

[img] Text
Psoriasis-Specific RNA Isoforms Identified by RNA-Seq Analysis of 173,446 Transcripts.pdf - Published version

Download (2MB)

Abstract

<h4>Background</h4>Several studies have been published that investigated potential links between transcriptome changes and psoriasis using microarrays and RNA-seq technologies, but no previous study has analyzed expression profile of alternatively spliced transcripts in psoriasis.<h4>Objectives</h4>Identification of potential alternatively spliced RNA isoforms with disease-specific expression profile.<h4>Methods</h4>Using our published RNA sequencing data from lesional psoriatic (LP), non-lesional psoriatic (NLP), and normal control skin (C), we analyzed the differential expression of RNA splicing variants. LP sample was compared with NLP, as was LP with C and NLP with C.<h4>Results</h4>Transcript-based annotation analyzed 173,446 transcripts (RNA isoforms), and around 9,000 transcripts were identified as differentially expressed between study groups. Several previously undescribed RNA variants were found. For instance, transcript ETV3_3 (ENST00000326786) was significantly downregulated in LP and NLP skin. ETV3 is a transcriptional repressor that contributes to the downstream anti-inflammatory effects of IL-10. We also identified diseases-specific transcripts (S100A7A, IL36RN_4, and IL36G_3) of genes already recognized to be involved in inflammation and immune response.<h4>Conclusion</h4>Psoriasis is characterized by significant differences in the expression of RNA alternative isoforms. Description of these new isoforms improves our knowledge about this complex disease.

Item Type: Article
Uncontrolled Keywords: psoriasis, transcriptome, transcript expression profiling, RNA sequencing
Depositing User: Symplectic Admin
Date Deposited: 06 Mar 2019 10:12
Last Modified: 19 Jan 2023 00:57
DOI: 10.3389/fmed.2016.00046
Related URLs:
URI: https://livrepository.liverpool.ac.uk/id/eprint/3033814