Visualisation of FAANG data with VizFaDa
Résumé
The FAANG (Functional Annotation of Animal Genomes) international consortium aims to produce high-
quality functional annotation of the genomes of domesticated animals [1]. Members of the community can
submit their epigenomics, transcriptomics or genomics data to the FAANG Data Portal
(https://data.faang.org) coordinated by a Data Coordination Centre at the EMBL-EBI [2]. FAANG data
conforms to principles of findability, accessibility, interoperability and reusability (FAIR). The FAANG Data
Portal allows users to find, select and download datasets relevant to their research using extensive sample
and experimental metadata standards.
VizFaDa aims to produce interactive data visualization through web applications intended to be integrated
to the FAANG Data Portal. In order to generate those visualizations, the raw data from the portal has to be
processed. During this step, quality control reports are created, providing valuable and previously
unavailable insight into the quality of the data. VizFaDa focuses on RNA-seq, ChIP-seq and DNA
methylation data.
Interactive clustered correlation heatmap are generated, allowing the user to compare experiments from a
certain assay type within a species. Experiments with similar results are clustered together. The user can use
FAANG metadata to annotate the heatmap or to filter experiments from the database for a more focused
visualization. Stacked epigenetic profiles are created from gene expression and epigenetic data obtained
either from the same sample or from two comparable samples, notably at transcription start sites. This allow
the investigation of relationship between epigenetic marks and transcription levels. Data submitted to the
portal will be automatically processed and added to VizFaDa, ensuring the long-term relevance and accuracy
of the project.
During VizFaDa demonstration, I will be presenting features and several use-cases of the VizFaDa web
application, and discuss how the community can take advantage of our work.
Origine : Fichiers produits par l'(les) auteur(s)