DATA MANAGEMENT PLAN IN THE REAL LIFE SCIENCES

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DATA MANAGEMENT PLAN IN THE REAL LIFE…

SCIENCES

Yvan Le Bras Cyril Monjeaud Olivier Collin Jacques Nicolas

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Context

Kahn. On the future of genomic data. Science (2011) vol. 331 (6018) pp. 728-9

 Now : Genomics : Next Generation Sequencing  Now : Proteomics  Next : Bio-imaging  Digital data  Huge amount  Heterogenous

 Critical situation for some laboratories

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Context

• Exchange from one domain to another

• From ICT / IT to scientific domains

• Between scientific domains

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E-BIOGENOUEST

From the biogenouest project to the first french e-Science center : CeSGO

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E-Biogenouest

• Started in May 2012 for 3 years

• Funded by Brittany and Pays de la Loire

• E-science initiative for the Biogenouest network

• Test an e-Science approach

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E-Biogenouest

• Started in May 2012 for 3 years

• Funded by Brittany and Pays de la Loire

• E-science initiative for the Biogenouest network

• Test an e-Science approach

• Roadmap preparation

An innovative VRE concept More than 120 scientists trained! More than 200 users!

1669 meetings ;) -Mission interdisciplinarité CNRS -PIA -IFB -Fce Génomique -Rapsodyn -Sciences citoyennes -UEB C@mpus -CPER -FRM -INCa -H2020 Health IT Agro Environment 7 submitted publications

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VRE: a tool for e-Science application

Virtual Research Environment

Web portal Data softwares Processing resources User Community Collaboration

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An innovative VRE approach

• Research Lifecycle

• Open source solutions

• Don’t reinvente the wheel

http://www.jisc.ac.uk/whatwedo/campaigns/res3/jischelp.aspx#simulate

Mutualise

win win

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Communauté

HubZero

Galaxy EMME

Continuum

Continuum data management & analysis

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HUBzero : Scientifique collaborative platform

eBGO HUB

HUBzero to share knowledge and manage groups and

projects Informations 218 users 111 projects 53 groups 729 resources

> 400 uniq users uniques by month …

Purdue University

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ISAtools : Experimental data management

EMME

ISAtools suite to store data & metadata

Fonctionalities

-based on biomed ontologies

-bridge between existing biomed standards -format publication submission

-Pydio to upload data

-biological investigation repository (data + metadata)

Oxford eResearch Centre

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Galaxy : Data analysis web platform

GALAXY by GenOuest

To analyse & share data as processes and tools

Informations

34917 jobs 150 users

More than 800 outils

Share

- data - histories - workflows - tools

Penn state university

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Pydio : File sharing platform

Pydio by GenOuest

To store & share data as links

Informations

-Galaxy workspace -EMME workspace -INCa workspace

Share

- data via URI - control

- safety - privacy

Abstrium SAS

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• For society

• Open Science and open data

• For end users scientists communities

• Data management plan

• Preserve, access, share & visualise (data & analytics porocesses)

• Help for project management …

• For ICT

• Facilitate the use of tools Research Service

• Accelerate switch between dev to production state

• Optimise infrastructures use (storage, computing & network…)

• Infrastructure for data infastructure of data

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DMP ON THE LINE

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Metadata repository

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Metadata repository

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CeSGO & DMP

• Données administratives • Dénomination du projet • Description du projet • Nom / ID du responsable • Agence de financement • Version du DMP

• Politique appliquée aux données

• Responsabilités et ressources

• Collecte / création de données

• Description du jeu de données

• Protocole

• Méthode

• Equipements

• Assurance qualité appliquée

• Documentation et métadonnées

• Entrepôt Bii

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CeSGO & DMP

• Stockage, sauvegarde et sécurité des données

• Datacenter CeSGO pendant la durée du projet (max : 5 ans)

• Ethique et cadre légal

• Protection des données sensibles ou personnelles

• CC version 4.0

• Partage des données

• Accès libre ou restreint

• Délai : 3 ans max après leur collecte

• Entrepôts (GEO, Genbank, SRA, Uniprot, PRIDE, ….)

• Outils nécessaires à la réutilisation / validation des données

• Data paper

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CESGO: 5 GOALS

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CeSGO : Western France e-Science

Data

management

Life sciences protocols

metadata

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CeSGO : Western France e-Science

• New VREs!

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CeSGO : Western France e-Science

• New VREs!

• Connected using semantic web approaches

• Thanks to DOI attribution

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CeSGO : Western France e-Science

Reproducibility

cloud

docker

Galaxy

versioning

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CeSGO : Western France e-Science

Accessibility

wiki

Public resources

Analytics processes Publications Experiments

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Merci de votre attention

eBGO HUB (collaboration) http://www.e-biogenouest.org/

Scitizen portal (citizen science) http://scitizen.genouest.org

EMME portal (data management) http://emme.genouest.org/

Galaxy instance (data analysis) http://galaxy.genouest.org/

GO4Bioinformatics (education ) https://www.e-biogenouest.org/einfrastructure/education

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