VitViz

Gene Function associations represented as Gene Cards with references and all the information from the most recent version of the catalogue. Includes an interactive organ expression viewer thorough all SRA runs available.

Use Expression Atlases App to navigate through different transcriptomic datasets (microarray or RNA-Seq) in order to test the expression of your genes across specific tissues and developmental stages.

Aggregate gene-co-expression networks constructed using different tissue-specific RNA-Seq datasets (tissue-specific GCNs) and all the RNA-Seq datasets available in SRA (tissue independent).

Break down whole genome aggregate networks into individual-gene-centered or gene-list-centered subnetworks for a meaningful visualization of gene co-expression relationships.

EXpression Heatmaps Across all SRA Runs used in AggGCNs

Use Exhara to inspect gene expression across all SRA-Seq runs used in the AggGCNs App. The fruit/flower and leaf data presented corresponds to the processed SRA runs in Orduña et al. (2022). Direct regulation of shikimate, early phenylpropanoid and stilbenoid pathways by Subgroup 2 R2R3-MYBs in grapevine. Plant J. doi: 10.1111/tpj.15686

Browse through DAP-Seq data associated to the PN40024.2 genome assembly for different transcription factors.

Convert between V3(V.Cost) and V1 gene ID annotations as well and append gene names and relevant info extracted from the grapevine reference gene catalogue provided as part of the INTEGRAPE COST Action (CA17111).

The Transcriptomics & Metabolomics integrated database (TransMetaDb) can be used to explore the correlation between the expression of a list of genes of interest and different metabolites. For those correctly annotated experiments, there is also the option to integrate different studies, giving rise to more robust correlation analyses.