microALGAE FUNctional enrichment for MicroAlgae RnA-seq and Chip-seq AnalysiS (MARACAS)

AlgaeFUN with MARACAS (https://greennetwork.us.es/AlgaeFUN/) is a web based tool for the analysis of RNA-seq and ChIP-seq data and the functional annotation of the resulting gene sets and genomic loci. ALGAEFUN with MARACAS supports the analysis for a wide collection of microalgae that includes Chlamydomonas reinhardtii, Ostreococcus tauri, Phaeodactylum tricornutum and Nannochlorpsis gaditana.

The code is freely available at Github: https://github.com/fran-romero-campero/MARACAS and https://github.com/fran-romero-campero/AlgaeFUN

AlgaeFUN allows researchers to perform functional annotation over gene sets. Gene Ontology (GO) enrichment analysis as well as KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway enrichment analysis are supported. The gene set of interest can be obtained, for example, as the result of a differential expression analysis carried out using MARACAS. AlgaeFUN also allows researchers to perform annotation analysis of genomic loci or regions. These are typically generated from ChIP-seq studies of the genome-wide distribution of epigenetic marks or transcription factor binding sites.

Romero-Losada AB, Arvanitidou C, de los Reyes P, García-González M, Romero-Campero FJ. (2021) ALGAEFUN with MARACAS, microALGAE FUNctional enrichment tool for MicroAlgae RnA-seq and Chip-seq AnalysiS. bioRXiv [online preprint]. [abstract]

Leave a Reply

Your email address will not be published. Required fields are marked *

*

Time limit is exhausted. Please reload CAPTCHA.