An orthology-based methodology as a complementary approach to retrieve evolutionarily conserved A-to-I RNA editing sites

Liu, Jiyao; Zhao, Tianyou; Zheng, Caiqing; Ma, Ling; Song, Fan; Tian, Li; Cai, Wanzhi; Li, Hu; Duan, Yuange

doi:10.1080/15476286.2024.2397757

RNA Biology

2024

DOI: 10.1080/15476286.2024.2397757

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An orthology-based methodology as a complementary approach to retrieve evolutionarily conserved A-to-I RNA editing sites

Jiyao Liu,

Tianyou Zhao,

Caiqing Zheng

et al.

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In silico and experimental approaches for validating RNA editing events in transcriptomes

Wei

2024

RNA Biology

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As a typical RNA virus, SARS-CoV-2 is subjected to RNA editing in host cells. While some researchers believe that a traditional variant calling pipeline retrieves all true-positive RNA editing events from the transcriptome, others argue that conventional methods identify many false-positive sites. Here, I describe several additional in silico and experimental approaches to validate the authenticity of RNA editing in SARS-CoV-2. These approaches include requiring strand-specific sequencing, analysis of hyperedited reads, linkage analysis, orthogonal methods like mass spectrometry, and the use of ADAR-deficient host cells. These findings may improve future analyses on the identification of RNA editing, especially in RNA viruses.

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In silico and experimental approaches for validating RNA editing events in transcriptomes

Wei

2024

RNA Biology

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An orthology-based methodology as a complementary approach to retrieve evolutionarily conserved A-to-I RNA editing sites

Cited by 1 publication

References 66 publications

In silico and experimental approaches for validating RNA editing events in transcriptomes

In silico and experimental approaches for validating RNA editing events in transcriptomes

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