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WP3 - ​FAANG data coordination, standardisation and integration

WP Leader: Dr. Guy Cochrane – EMBL 
Deputy WP leader: Dr. Andrea Rosati – EAAP 
Involved partners: EMBL, EAAP
Background
The FAANG DCC established a data submission process based upon validation of spreadsheet templates and subsequent automated conversion to formats required by the public archives. This process ensured conformation to standards, rich metadata and protected users from complex programmatic submission interfaces, but user provision of metadata remains a challenging and time-consuming process provides a focal point for the community, presenting data submitted to various archives through a single web portal interface. However, to date the system remains largely untested in terms of its full potential, as data provision has been limited thus far. As FAANG moves into its next phase, with significantly more funding for data generation around the world, it will be important for the portal development to innovate to ensure that the influx of datasets remain easily searchable and visible within the portal. Added value data presentation is also in its infancy, with opportunity for integration of analysis tracks, graphical visualisation, publication tracking and project pages that highlight the scientific findings of the varied FAANG projects, protocols and analysis pipelines.
Objectives
  • To provide cross workpackage support and solutions for data coordination, curation, validation, archiving, dissemination and publication of the projects data, analyses and workflows through the European public biological data archives and FAANG data portal.
  • To establish the European Node of the FAANG Data Coordination Centre (DCC), to maximise scientific excellence and value to breeders through the delivery of optimal in-project data flows, compliance and enhancement of FAANG standards, and the integration and comparison of the project’s data with worldwide FAANG projects.
  • To enhance ontologies for monogastric species, provide in person workshops and on-demand web-based training, innovate presentation of analysis outputs and coordinate the projects data through a project specific section of the data portal.
Tasks
  • T3.1 - Configuration of Data Coordination, Validation and Archiving processes. Inter- and intra-project data management, through coordination with European Node of the FAANG DCC
  • T3.2 - Establish and maintain collaborative cloud analysis infrastructure
  • T3.3 - Enhance Livestock Ontologies for Monogastric Species
  • T3.4 - Develop innovative presentation methods for GENE-SWitCH data and analyses
  • T3.5 - Support for community presentation, dissemination and training
WP1 - Sample collection and assays-by-sequence

WP2 - New annotation maps of pig and chicken genomes

WP3 - FAANG Data Coordination, Standardisation and Integration

​WP4 - Improving predictive models for genomic selection

​WP5 - Influence of maternal diet on epigenetic programming of offspring

​WP6 - Outreach, dissemination and training

WP7 - Project management and consortium coordination

​WP8 - Ethics