<div class="csl-bib-body">
<div class="csl-entry">Schmal, M., Girod, C., Yaver, D., Mach, R., & Mach-Aigner, A. (2022). A bioinformatic-assisted workflow for genome-wide identification of ncRNAs. <i>NAR Genomics and Bioinformatics</i>, <i>4</i>(3), lqac059. https://doi.org/10.1093/nargab/lqac059</div>
</div>
-
dc.identifier.uri
http://hdl.handle.net/20.500.12708/141988
-
dc.description.abstract
With the upcoming of affordable Next-Generation Sequencing technologies, the number of known non-protein coding RNAs increased drastically in recent years. Different types of non-coding RNAs (ncRNAs) emerged as key players in the regulation of gene expression on the RNA-RNA, RNA-DNA as well as RNA-protein level, ranging from involvement in chromatin remodeling and transcription regulation to post-transcriptional modifications. Prediction of ncRNAs involves the use of several bioinformatics tools and can be a daunting task for researchers. This led to the development of analysis pipelines such as UClncR and lncpipe. However, these pipelines are limited to datasets from human, mouse, zebrafish or fruit fly and are not able to analyze RNA sequencing data from other organisms. In this study, we developed the analysis pipeline Pinc (Pipeline for prediction of ncRNA) as an enhanced tool to predict ncRNAs based on sequencing data by removing transcripts that show protein-coding potential. Additionally, a feature for differential expression analysis of annotated genes as well as for identification of novel ncRNAs is implemented. Pinc uses Nextflow as a framework and is built with robust and well-established analysis tools. This will allow researchers to utilize sequencing data from every organism in order to reliably identify ncRNAs.
en
dc.description.sponsorship
CDG Christian Doppler Forschungsgesellschaft
-
dc.language.iso
en
-
dc.publisher
Oxford University Press
-
dc.relation.ispartof
NAR Genomics and Bioinformatics
-
dc.subject
ncRNA
en
dc.subject
next-generation sequencing
en
dc.title
A bioinformatic-assisted workflow for genome-wide identification of ncRNAs
en
dc.type
Article
en
dc.type
Artikel
de
dc.identifier.pmid
35979446
-
dc.contributor.affiliation
Novozymes (United States), United States of America (the)
-
dc.contributor.affiliation
Novozymes (United States), United States of America (the)
-
dc.description.startpage
lqac059
-
dc.relation.grantno
CAZy
-
dcterms.dateSubmitted
2022
-
dc.type.category
Original Research Article
-
tuw.container.volume
4
-
tuw.container.issue
3
-
tuw.journal.peerreviewed
true
-
tuw.peerreviewed
true
-
wb.publication.intCoWork
International Co-publication
-
tuw.project.title
Christian Doppler Labor für optimierte Expression von Kohlenhydrat-aktiven Enzymen
-
tuw.researchTopic.id
E5
-
tuw.researchTopic.name
Efficient Utilisation of Material Resources
-
tuw.researchTopic.value
100
-
dcterms.isPartOf.title
NAR Genomics and Bioinformatics
-
tuw.publication.orgunit
E166-05-1 - Forschungsgruppe Synthetische Biologie und Molekulare Biotechnologie
-
tuw.publisher.doi
10.1093/nargab/lqac059
-
dc.date.onlinefirst
2022-08-15
-
dc.identifier.eissn
2631-9268
-
tuw.author.orcid
0000-0003-2375-7244
-
tuw.author.orcid
0000-0002-7575-2317
-
wb.sciencebranch
Biologie
-
wb.sciencebranch
Industrielle Biotechnologie
-
wb.sciencebranch.oefos
1060
-
wb.sciencebranch.oefos
2090
-
wb.sciencebranch.value
35
-
wb.sciencebranch.value
65
-
item.grantfulltext
none
-
item.cerifentitytype
Publications
-
item.fulltext
no Fulltext
-
item.openairetype
research article
-
item.openairecristype
http://purl.org/coar/resource_type/c_2df8fbb1
-
item.languageiso639-1
en
-
crisitem.author.dept
E166-05-1 - Forschungsgruppe Synthetische Biologie und Molekulare Biotechnologie
-
crisitem.author.dept
Novozymes (United States)
-
crisitem.author.dept
Novozymes (United States)
-
crisitem.author.dept
E166 - Institut für Verfahrenstechnik, Umwelttechnik und technische Biowissenschaften
-
crisitem.author.dept
E166-05 - Forschungsbereich Biochemische Technologie
-
crisitem.author.orcid
0000-0002-3592-4882
-
crisitem.author.orcid
0000-0003-2375-7244
-
crisitem.author.orcid
0000-0002-7575-2317
-
crisitem.author.parentorg
E166-05 - Forschungsbereich Biochemische Technologie
-
crisitem.author.parentorg
E150 - Fakultät für Technische Chemie
-
crisitem.author.parentorg
E166 - Institut für Verfahrenstechnik, Umwelttechnik und technische Biowissenschaften