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DIANA-mAP: Analyzing miRNA from Raw NGS Data to Quantification
- Source :
- Genes, Vol 12, Iss 46, p 46 (2021), DOAJ-Articles, UnpayWall, ORCID, Microsoft Academic Graph, Multidisciplinary Digital Publishing Institute, PubMed Central, Volume 12, Genes, Issue 1
- Publication Year :
- 2020
- Publisher :
- MDPI AG, 2020.
-
Abstract
- microRNAs (miRNAs) are small non-coding RNAs (~22 nts) that are considered central post-transcriptional regulators of gene expression and key components in many pathological conditions. Next-Generation Sequencing (NGS) technologies have led to inexpensive, massive data production, revolutionizing every research aspect in the fields of biology and medicine. Particularly, small RNA-Seq (sRNA-Seq) enables small non-coding RNA quantification on a high-throughput scale, providing a closer look into the expression profiles of these crucial regulators within the cell. Here, we present DIANA-microRNA-Analysis-Pipeline (DIANA-mAP), a fully automated computational pipeline that allows the user to perform miRNA NGS data analysis from raw sRNA-Seq libraries to quantification and Differential Expression Analysis in an easy, scalable, efficient, and intuitive way. Emphasis has been given to data pre-processing, an early, critical step in the analysis for the robustness of the final results and conclusions. Through modularity, parallelizability and customization, DIANA-mAP produces high quality expression results, reports and graphs for downstream data mining and statistical analysis. In an extended evaluation, the tool outperforms similar tools providing pre-processing without any adapter knowledge. Closing, DIANA-mAP is a freely available tool. It is available dockerized with no dependency installations or standalone, accompanied by an installation manual through Github.
- Subjects :
- 0301 basic medicine
Differential expression analysis
lcsh:QH426-470
analysis
computer.software_genre
Modularity
Article
Personalization
Mice
03 medical and health sciences
0302 clinical medicine
Robustness (computer science)
Databases, Genetic
expression
microRNA
Genetics
Animals
Data Mining
Humans
Genetics(clinical)
Statistical analysis
small RNA-Seq
Genetics (clinical)
Gene Library
Sequence Analysis, RNA
Adapter (computing)
Computational Biology
High-Throughput Nucleotide Sequencing
pipeline
bioinformatics
quantification
3. Good health
Benchmarking
MicroRNAs
lcsh:Genetics
030104 developmental biology
Gene Expression Regulation
Fully automated
NGS
030220 oncology & carcinogenesis
Rna quantification
Scalability
Data mining
computer
Software
Subjects
Details
- Language :
- English
- ISSN :
- 20734425
- Volume :
- 12
- Issue :
- 2073-4425
- Database :
- OpenAIRE
- Journal :
- Genes
- Accession number :
- edsair.doi.dedup.....7c53bf817d58d8de122f201fb624899a