About COST Action CA17111
COST ACTION CA17111
“DATA INTEGRATION TO MAXIMISE THE POWER OF OMICS FOR GRAPEVINE IMPROVEMENT”
officially started in September 2018.
Main Challenge
Establish an open, international, and representative network that integrates data from existing resources in a cost-effective manner, as well as making interoperable grapevine dataset and tools available in a secure and standardized format.
Goals
Grant Period 3
- Establish a common access point for grapevine data in the existing and well developed platforms in the context of systems biology.
- Improve the interoperability between Omics data and associated field data (e.g. climatic, agricultural and viticulture data) using data standards, ontologies and common application programming interfaces.
- Integrate grapevine data with other relevant datasets, such as the metagenomics of microorganisms interacting with grapevine plants and winemaking-related datasets.
- Provide recommendations and tools for data submission compliant to FAIR principles and data extraction: recommended repositories, standards formats, ontologies and validation tools.
- Develop a strategy to generate and update shared dictionaries of synonyms for genes and markers to improve the standards and ontologies, in the genetic and genomic domains with the final goal of providing recommendations to the grapevine community for their use based on real datasets.
- Build a centralized framework for the standard annotation of grapevine genes by integrating and disseminating the IGGP guidelines which propose a standard nomenclature for locus identifiers and define a convention for a gene naming in the context of grapevine genomics.
- Develop guidelines for the processing and analysis of sequence variation, transcriptomics, proteomics, metabolomics, and phenotypic datasets, using whatever information is available about the samples and analytical protocols.
- Disseminate the recommendations made and train the grapevine community to follow recommendations about guidelines on data standardization and data analysis, providing feedback
- Organise webinars to demonstrate the scope and use of software tools and information systems
- Organise hands-on sessions to test the recommendations and tools on real datasets and to train the wider community to comply with the recommended standards.
Description
Imagine having all data on grapevine accessible in a single place…
The European network INTEGRAPE seeks to completely integrate all information regarding one of the world’s oldest crops — grapevine — and their main products: wine, table grapes and raisins. In particular, the world’s grape and wine industries will have full access to up-to-date information to meet their major challenges: to improve grape berry quality and produce better wines, whilst limiting the use of pesticides and adapting the wine industry to the threats of climate change.
New techniques allow the study of thousands of grapevine and grape characteristics at once, which generate huge datasets manageable only with the support of dedicated informatic tools. These datasets are often generated in different non-standardised formats across research laboratories, stored on a researcher’s lab computer or on a local database, which makes them poorly accessible for further use.
What are we doing?
INTEGRAPE will develop and promote tools that are dedicated to harnessing and exploiting all available datasets collected by grapevine scientists in the fields of molecular biology, genetics, biochemistry and systems biology.
Where is this going?
Last but not least, INTEGRAPE will make this data available and usable beyond the original experiments, and will be interoperable in a secure and standardised format, to develop these grapevine datasets in order to be made available to public and private research communities.
Find Out More
The INTEGRAPE Team
How to acknowledge our COST Action
Please use the following text to acknowledge CA 17111 INTEGRAPE in all of your future publications related to INTEGRAPE: