RTCpredictor: Identification of Read-Through Chimeric RNAs from RNA Sequencing Data Article Swipe
Sandeep Singh
,
Xinrui Shi
,
Syed Basil Ahmad
,
Tommy Manley
,
Claire Piczak
,
Christopher Phung
,
Yunan Sun
,
Sarah Lynch
,
Aadi Sharma
,
Hui Li
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1101/2023.02.02.526869
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1101/2023.02.02.526869
Read-through chimeric RNAs are gaining attention in cancer and other research fields, yet current tools often fail in predicting them. We have thus developed the first read-through chimeric RNA specific prediction method, RTCpredictor, utilizing a fast ripgrep algorithm to search for all possible exon-exon combinations of parental gene pairs. Compared with other ten popular tools, RTCpredictor achieved top performance on both simulated and real datasets. We randomly selected up to 30 candidate read-through chimeras predicted from each software method and experimentally validated a total of 109 read-throughs and on this set, RTCpredictor outperformed all the other methods. In addition, RTCpredictor ( https://github.com/sandybioteck/RTCpredictor ) has less memory requirements and faster execution time.
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- Type
- preprint
- Language
- en
- Landing Page
- https://doi.org/10.1101/2023.02.02.526869
- https://www.biorxiv.org/content/biorxiv/early/2023/02/03/2023.02.02.526869.full.pdf
- OA Status
- green
- References
- 56
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4319229526
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4319229526Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1101/2023.02.02.526869Digital Object Identifier
- Title
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RTCpredictor: Identification of Read-Through Chimeric RNAs from RNA Sequencing DataWork title
- Type
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preprintOpenAlex work type
- Language
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enPrimary language
- Publication year
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2023Year of publication
- Publication date
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2023-02-03Full publication date if available
- Authors
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Sandeep Singh, Xinrui Shi, Syed Basil Ahmad, Tommy Manley, Claire Piczak, Christopher Phung, Yunan Sun, Sarah Lynch, Aadi Sharma, Hui LiList of authors in order
- Landing page
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https://doi.org/10.1101/2023.02.02.526869Publisher landing page
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https://www.biorxiv.org/content/biorxiv/early/2023/02/03/2023.02.02.526869.full.pdfDirect link to full text PDF
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YesWhether a free full text is available
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greenOpen access status per OpenAlex
- OA URL
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https://www.biorxiv.org/content/biorxiv/early/2023/02/03/2023.02.02.526869.full.pdfDirect OA link when available
- Concepts
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Identification (biology), Computational biology, RNA, Biology, Computer science, Genetics, Gene, BotanyTop concepts (fields/topics) attached by OpenAlex
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0Total citation count in OpenAlex
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56Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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