RNAdetector: a Free User-friendly Stand-alone and Cloud-based System for RNA-Seq Data Analysis

Overview

Journal BMC Bioinformatics

Publisher Biomed Central

Specialty Biology

Date 2021 Jun 4

PMID 34082707

Citations 8

Authors

Alessandro La Ferlita

Salvatore Alaimo

Sebastiano Di Bella

Emanuele Martorana

Georgios I Laliotis

Francesco Bertoni

Luciano Cascione

Philip N Tsichlis

Alfredo Ferro

Roberta Bosotti

Alfredo Pulvirenti

Affiliations

Soon will be listed here.

Abstract

Background: RNA-Seq is a well-established technology extensively used for transcriptome profiling, allowing the analysis of coding and non-coding RNA molecules. However, this technology produces a vast amount of data requiring sophisticated computational approaches for their analysis than other traditional technologies such as Real-Time PCR or microarrays, strongly discouraging non-expert users. For this reason, dozens of pipelines have been deployed for the analysis of RNA-Seq data. Although interesting, these present several limitations and their usage require a technical background, which may be uncommon in small research laboratories. Therefore, the application of these technologies in such contexts is still limited and causes a clear bottleneck in knowledge advancement.

Results: Motivated by these considerations, we have developed RNAdetector, a new free cross-platform and user-friendly RNA-Seq data analysis software that can be used locally or in cloud environments through an easy-to-use Graphical User Interface allowing the analysis of coding and non-coding RNAs from RNA-Seq datasets of any sequenced biological species.

Conclusions: RNAdetector is a new software that fills an essential gap between the needs of biomedical and research labs to process RNA-Seq data and their common lack of technical background in performing such analysis, which usually relies on outsourcing such steps to third party bioinformatics facilities or using expensive commercial software.

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