Article ; Online: RNfuzzyApp: an R shiny RNA-seq data analysis app for visualisation, differential expression analysis, time-series clustering and enrichment analysis.
2021 Volume 10, Page(s) 654
Abstract: RNA sequencing (RNA-seq) is a widely adopted affordable method for large scale gene expression profiling. However, user-friendly and versatile tools for wet-lab biologists to analyse RNA-seq data beyond standard analyses such as differential expression, ... ...
| Abstract | RNA sequencing (RNA-seq) is a widely adopted affordable method for large scale gene expression profiling. However, user-friendly and versatile tools for wet-lab biologists to analyse RNA-seq data beyond standard analyses such as differential expression, are rare. Especially, the analysis of time-series data is difficult for wet-lab biologists lacking advanced computational training. Furthermore, most meta-analysis tools are tailored for model organisms and not easily adaptable to other species. With RNfuzzyApp, we provide a user-friendly, web-based R shiny app for differential expression analysis, as well as time-series analysis of RNA-seq data. RNfuzzyApp offers several methods for normalization and differential expression analysis of RNA-seq data, providing easy-to-use toolboxes, interactive plots and downloadable results. For time-series analysis, RNfuzzyApp presents the first web-based, fully automated pipeline for soft clustering with the Mfuzz R package, including methods to aid in cluster number selection, cluster overlap analysis, Mfuzz loop computations, as well as cluster enrichments. RNfuzzyApp is an intuitive, easy to use and interactive R shiny app for RNA-seq differential expression and time-series analysis, offering a rich selection of interactive plots, providing a quick overview of raw data and generating rapid analysis results. Furthermore, its assignment of orthologs, enrichment analysis, as well as ID conversion functions are accessible to non-model organisms. |
|---|---|
| MeSH term(s) | Cluster Analysis ; Data Analysis ; Mobile Applications ; RNA/genetics ; RNA-Seq ; Sequence Analysis, RNA/methods |
| Chemical Substances | RNA (63231-63-0) |
| Language | English |
| Publishing date | 2021-07-26 |
| Publishing country | England |
| Document type | Journal Article ; Meta-Analysis ; Research Support, Non-U.S. Gov't |
| ZDB-ID | 2699932-8 |
| ISSN | 2046-1402 ; 2046-1402 |
| ISSN (online) | 2046-1402 |
| ISSN | 2046-1402 |
| DOI | 10.12688/f1000research.54533.2 |
| Database | MEDical Literature Analysis and Retrieval System OnLINE |
More links
Kategorien
Order via subito
This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.