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CiLiQuant: Quantification of RNA Junction Reads Based on Their Circular or Linear Transcript Origin
Distinguishing circular RNA reads from reads derived from the linear host transcript is a challenging task because of sequence overlap. We developed a computational approach, CiLiQuant, that determines the relative circular and linear abundance of transcripts and gene loci using back-splice and unam...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9580843/ https://www.ncbi.nlm.nih.gov/pubmed/36304262 http://dx.doi.org/10.3389/fbinf.2022.834034 |
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author | Morlion, Annelien Hulstaert, Eva Vromman, Marieke Anckaert, Jasper Everaert, Celine Vandesompele, Jo Mestdagh, Pieter |
author_facet | Morlion, Annelien Hulstaert, Eva Vromman, Marieke Anckaert, Jasper Everaert, Celine Vandesompele, Jo Mestdagh, Pieter |
author_sort | Morlion, Annelien |
collection | PubMed |
description | Distinguishing circular RNA reads from reads derived from the linear host transcript is a challenging task because of sequence overlap. We developed a computational approach, CiLiQuant, that determines the relative circular and linear abundance of transcripts and gene loci using back-splice and unambiguous forward-splice junction reads generated by existing mapping and circular RNA discovery tools. |
format | Online Article Text |
id | pubmed-9580843 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-95808432022-10-26 CiLiQuant: Quantification of RNA Junction Reads Based on Their Circular or Linear Transcript Origin Morlion, Annelien Hulstaert, Eva Vromman, Marieke Anckaert, Jasper Everaert, Celine Vandesompele, Jo Mestdagh, Pieter Front Bioinform Bioinformatics Distinguishing circular RNA reads from reads derived from the linear host transcript is a challenging task because of sequence overlap. We developed a computational approach, CiLiQuant, that determines the relative circular and linear abundance of transcripts and gene loci using back-splice and unambiguous forward-splice junction reads generated by existing mapping and circular RNA discovery tools. Frontiers Media S.A. 2022-02-22 /pmc/articles/PMC9580843/ /pubmed/36304262 http://dx.doi.org/10.3389/fbinf.2022.834034 Text en Copyright © 2022 Morlion, Hulstaert, Vromman, Anckaert, Everaert, Vandesompele and Mestdagh. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Bioinformatics Morlion, Annelien Hulstaert, Eva Vromman, Marieke Anckaert, Jasper Everaert, Celine Vandesompele, Jo Mestdagh, Pieter CiLiQuant: Quantification of RNA Junction Reads Based on Their Circular or Linear Transcript Origin |
title | CiLiQuant: Quantification of RNA Junction Reads Based on Their Circular or Linear Transcript Origin |
title_full | CiLiQuant: Quantification of RNA Junction Reads Based on Their Circular or Linear Transcript Origin |
title_fullStr | CiLiQuant: Quantification of RNA Junction Reads Based on Their Circular or Linear Transcript Origin |
title_full_unstemmed | CiLiQuant: Quantification of RNA Junction Reads Based on Their Circular or Linear Transcript Origin |
title_short | CiLiQuant: Quantification of RNA Junction Reads Based on Their Circular or Linear Transcript Origin |
title_sort | ciliquant: quantification of rna junction reads based on their circular or linear transcript origin |
topic | Bioinformatics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9580843/ https://www.ncbi.nlm.nih.gov/pubmed/36304262 http://dx.doi.org/10.3389/fbinf.2022.834034 |
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