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Microarray analysis and functional prediction of differentially expressed circular RNAs in acquired middle ear cholesteatoma

BACKGROUND: Middle ear cholesteatoma is characterized by hyper-proliferation of keratinocytes. Circular RNA (circRNA) plays an essential role in the pathogenesis of many proliferative diseases. However, the role of circRNA in the etiopathogenesis of middle ear cholesteatoma is rarely investigated so...

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Autores principales: Xie, Shumin, Jin, Li, Yin, Tuanfang, Ren, Jihao, Liu, Wei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8684697/
https://www.ncbi.nlm.nih.gov/pubmed/34922560
http://dx.doi.org/10.1186/s12938-021-00960-x
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author Xie, Shumin
Jin, Li
Yin, Tuanfang
Ren, Jihao
Liu, Wei
author_facet Xie, Shumin
Jin, Li
Yin, Tuanfang
Ren, Jihao
Liu, Wei
author_sort Xie, Shumin
collection PubMed
description BACKGROUND: Middle ear cholesteatoma is characterized by hyper-proliferation of keratinocytes. Circular RNA (circRNA) plays an essential role in the pathogenesis of many proliferative diseases. However, the role of circRNA in the etiopathogenesis of middle ear cholesteatoma is rarely investigated so far. We aimed to investigate the differential expression profiling of circRNAs between acquired middle ear cholesteatoma and normal skin, and to identify potential circRNAs contributing to the etiopathogenesis of middle ear cholesteatoma. Microarray analysis and functional prediction were performed to investigate the circRNA expression profiling between middle ear cholesteatoma and normal skin. Validation of differentially expressed circRNAs was conducted by qRT-PCR. Prediction of m(6)A modification was also carried out. RESULTS: Microarray analysis displayed that totally 93 up-regulated and 85 down-regulated circRNAs were identified in middle ear cholesteatoma. Through validation, expressions of hsa_circRNA_104327 and hsa_circRNA_404655 were significantly higher, while hsa_circRNA_000319 was significantly down-regulated in cholesteatoma. GO classification, KEGG pathway, and ceRNA network analyses suggested that these differentially expressed circRNAs might play important roles in the etiopathogenesis of middle ear cholesteatoma. Prediction of m(6)A modification exhibited that hsa_circRNA_000319 possessed 4 m(6)A sites with very high confidence, and hsa_circRNA_404655 had 3 m(6)A sites with high confidence. CONCLUSIONS: Our study revealed that these differentially expressed circRNAs might contribute to the etiopathogenesis of middle ear cholesteatoma. Further researches should be conducted to investigate the exact mechanism of these differentially expressed circRNAs in the etiopathogenesis of middle ear cholesteatoma. Targeting on these circRNAs may provide a new strategy for middle ear cholesteatoma therapy in the future. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12938-021-00960-x.
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spelling pubmed-86846972021-12-20 Microarray analysis and functional prediction of differentially expressed circular RNAs in acquired middle ear cholesteatoma Xie, Shumin Jin, Li Yin, Tuanfang Ren, Jihao Liu, Wei Biomed Eng Online Research BACKGROUND: Middle ear cholesteatoma is characterized by hyper-proliferation of keratinocytes. Circular RNA (circRNA) plays an essential role in the pathogenesis of many proliferative diseases. However, the role of circRNA in the etiopathogenesis of middle ear cholesteatoma is rarely investigated so far. We aimed to investigate the differential expression profiling of circRNAs between acquired middle ear cholesteatoma and normal skin, and to identify potential circRNAs contributing to the etiopathogenesis of middle ear cholesteatoma. Microarray analysis and functional prediction were performed to investigate the circRNA expression profiling between middle ear cholesteatoma and normal skin. Validation of differentially expressed circRNAs was conducted by qRT-PCR. Prediction of m(6)A modification was also carried out. RESULTS: Microarray analysis displayed that totally 93 up-regulated and 85 down-regulated circRNAs were identified in middle ear cholesteatoma. Through validation, expressions of hsa_circRNA_104327 and hsa_circRNA_404655 were significantly higher, while hsa_circRNA_000319 was significantly down-regulated in cholesteatoma. GO classification, KEGG pathway, and ceRNA network analyses suggested that these differentially expressed circRNAs might play important roles in the etiopathogenesis of middle ear cholesteatoma. Prediction of m(6)A modification exhibited that hsa_circRNA_000319 possessed 4 m(6)A sites with very high confidence, and hsa_circRNA_404655 had 3 m(6)A sites with high confidence. CONCLUSIONS: Our study revealed that these differentially expressed circRNAs might contribute to the etiopathogenesis of middle ear cholesteatoma. Further researches should be conducted to investigate the exact mechanism of these differentially expressed circRNAs in the etiopathogenesis of middle ear cholesteatoma. Targeting on these circRNAs may provide a new strategy for middle ear cholesteatoma therapy in the future. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12938-021-00960-x. BioMed Central 2021-12-18 /pmc/articles/PMC8684697/ /pubmed/34922560 http://dx.doi.org/10.1186/s12938-021-00960-x Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research
Xie, Shumin
Jin, Li
Yin, Tuanfang
Ren, Jihao
Liu, Wei
Microarray analysis and functional prediction of differentially expressed circular RNAs in acquired middle ear cholesteatoma
title Microarray analysis and functional prediction of differentially expressed circular RNAs in acquired middle ear cholesteatoma
title_full Microarray analysis and functional prediction of differentially expressed circular RNAs in acquired middle ear cholesteatoma
title_fullStr Microarray analysis and functional prediction of differentially expressed circular RNAs in acquired middle ear cholesteatoma
title_full_unstemmed Microarray analysis and functional prediction of differentially expressed circular RNAs in acquired middle ear cholesteatoma
title_short Microarray analysis and functional prediction of differentially expressed circular RNAs in acquired middle ear cholesteatoma
title_sort microarray analysis and functional prediction of differentially expressed circular rnas in acquired middle ear cholesteatoma
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8684697/
https://www.ncbi.nlm.nih.gov/pubmed/34922560
http://dx.doi.org/10.1186/s12938-021-00960-x
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