miRkit: R framework analyzing miRNA PCR array data.
GO
KEGG
PCR array
RT-PCR
miRNA
qPCR
Journal
BMC research notes
ISSN: 1756-0500
Titre abrégé: BMC Res Notes
Pays: England
ID NLM: 101462768
Informations de publication
Date de publication:
26 Sep 2021
26 Sep 2021
Historique:
received:
19
05
2021
accepted:
15
09
2021
entrez:
27
9
2021
pubmed:
28
9
2021
medline:
29
9
2021
Statut:
epublish
Résumé
The characterization of microRNAs (miRNA) in recent years is an important advance in the field of gene regulation. To this end, several approaches for miRNA expression analysis and various bioinformatics tools have been developed over the last few years. It is a common practice to analyze miRNA PCR Array data using the commercially available software, mostly due to its convenience and ease-of-use. In this work we present miRkit, an open source framework written in R, that allows for the comprehensive analysis of RT-PCR data, from the processing of raw data to a functional analysis of the produced results. The main goal of the proposed tool is to provide an assessment of the samples' quality, perform data normalization by endogenous and exogenous miRNAs, and facilitate differential and functional enrichment analysis. The tool offers fast execution times with low memory usage, and is freely available under a ΜΙΤ license from https://bio.tools/mirkit . Overall, miRkit offers the full analysis from the raw RT-PCR data to functional analysis of targeted genes, and specifically designed to support the popular miScript miRNA PCR Array (Qiagen) technology.
Identifiants
pubmed: 34565441
doi: 10.1186/s13104-021-05788-1
pii: 10.1186/s13104-021-05788-1
pmc: PMC8474725
doi:
Substances chimiques
MicroRNAs
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
376Subventions
Organisme : RESEARCH - CREATE - INNOVATE
ID : T2E1 K-00407
Organisme : Human Resources Development, Education and Lifelong Learning 2014-2020
ID : MIS 5048511
Organisme : general secretariat for research and technology
ID : Hellenic Network for Precision Medicine
Informations de copyright
© 2021. The Author(s).
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