Welcome to the Vitis Visualization platform (VitViz) - beta

If you detect any bug or just want to give us some feedback, please contact David Navarro: davidnp7 (at) gmail.com, Luis Orduña: luis.orduna (at) uv.es or Antonio Santiago: antsanpaj (at) gmail.com or . These tools have been developed for the grapevine community and form part of the activities of the TOMSBiolab team at the Institute of Integrative Systems Biology (I2SYSBIO, UV - CSIC).


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Available resources:

Catalogue Gene Cards

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.

Expression Atlases App

CorvinaFlowerBerry development

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.

AggGCNs App

Berry Fruit+flower Leaf Condition independent

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

EXHARA App

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. (2020). Major orchestration of shikimate, early phenylpropanoid and stilbenoid pathways by Subgroup 2 R2R3-MYBs in grapevine. bioRxiv.2020.12.31.424746

DAP-Browse App

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

Conversions App

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).