CESGOO.Collin / C. Monjeaud

Context

…the convergence of digital technologies for the production, dissemination and analysis of data and novel regulatory and institutional regimes is provoking a reshuffling of priorities in research practices and outcomes…

Sabina LeonelliData-Centric Biology: A Philosophical Study, Chicago, IL, Chicago University Press, 2016

Context : data-centrism & Open Science

Modern computers permit massive datasets to be assembled and explored in ways that reveal inherent but unsuspected relationships….

The emergence of linked data technologies creates new information through deeper integration across different datasets with the potential to greatly enhance automated approaches to data analysis.

Communication technologies have the potential to create novel social dynamics in science.

Big Data for Advancing Dementia

ResearchUlrike Deetjen | Eric T. Meyer | Ralph Schroeder

Oxford Internet Institute, University of OxfordMarch 2015

Ideas

Partners

Proposalwriting

Researchprocess

Publication

Production

Processing

AnalysisPreservation

Publication

Idea :

To provide an integratedenvironment to help scientists to work from project ideas to publication through data production and management

• Research lifecycle

• Data lifecycle

Data

• Collaborative phase• Text documents

• Contacts

• Mails

• Etc.

• Research phase• Séquences

• Images

• Spectrums

• Etc.

Collaboration Data*

Ideas

Partners

Proposalwriting

Researchprocess

Publication

Production

Processing

AnalysisPreservation

Publication

Project Lifecycle

Data Lifecycle

Que peut-on faire avec l’environnement CeSGO ?

Create groups Share ideas Exchange

Edit and sharedocuments

Deploy website

Manage projectsManage scientific

research dataLaunch computes

Manage and share files

A one stop shop

https://www.cesgo.org/collaborationhttps://data-access.cesgo.orghttps://seek.cesgo.org/https://projects.cesgo.orghttps://instant.cesgo.org

SEEK

• SEEK is being developed and funded as part of the FAIRDOM initiative

• Developed by University of Manchester

• FAIR : • Findable

• Accessible

• Interoperable

• Reusable

https://www.dtls.nl/fair-data/

A set of guidelines and principles for the management of scientificdata.

SEEK platform

Web-based resource for sharing heterogeneous scientific research• datasets

• models

• processes

• research outcomes

manage links between the different objects

ISA-tools format is used to describe the research activities• Investigations

• Studies

• Assays (experiments)

https://seek.cesgo.org

ISA standard

Investigation• project context

Ex: Growth control of the eukaryote cell: a systems biology study in yeast

Study• a unit of research

Ex: Study of the impact of changes in flux on the transcriptome under different nutrient limitations

Assay• analytical measurement

Ex: Protein expression profiling using mass spectrometry

I

SS

AA

S

Objects

• Yellow pages• Institution

• Project

• Biological Experiments• Investigation

• Study

• Assay

• Assets• Data file (uploaded and remote)

• Model (SBM)

• SOP (protocols)

• Publications

Samples

Sample

Sample type

Strain

Organism

I

SS

AA

S

In

Pr

D P O

Pre

Pre

SEEK objects

Activities

PresentationEvent

Collaboration Computation DataSc

ien

tifi

c p

ort

alIn

fras

tru

ctu

re

User management

Data management

Infrastructure management

Cluster CloudDisk storage

CeSGO integration with GenOuest

Collaboration Computation DataPo

rtai

l sc

ien

tifi

qu

eIn

fras

tru

ctu

re

loca

le

User management

Data management

Infrastructure management

E-In

fras

tru

ctu

re

Cluster Cloud

Communitymanagement

CeSGO integration with GenOuest and beyond

CeSGO & friends

• BioDataRing (ABiMS, BiRD, GenOuest)• Data replication

• iRODS technology compatible with EUDAT

•

• BioDataManager (GenOuest)• Data Management Plan (DMP)

• Data management tools

• Platform Manager (axe bio-imagerie)

Integration of these different services creates a dataflow fromwet lab to in silico experiments and data sharing.

DMPDescribe your

scientific project

ExperimentGenerate scientific

data

AnalyzeGenerate

scientific results

PublishShare data

Platform Manager

CeSGO

CollabData

AccessData

SharingData

Analysis

CeSGO

DMP

An unique and user friendly web interface using existing technologies: CeSGOand Platform-Manager

Conclusion

https://www.cesgo.org

CeSGO services

PPST

Le nouveau dispositif P.P.S.T. de la nation, rénové en 2011, vise à protéger les accès aux savoirs, savoir-faire et technologies les plus "sensibles" des établissements publics et privés, dont le détournement et la captation pourraient :

• Porter atteinte aux intérêts économiques de la nation,• Renforcer des arsenaux militaires étrangers ou affaiblir les capacités

de défense de la nation,• Contribuer à la prolifération des armes de destruction massive et de

leurs vecteurs• Etre utilisés à des fins terroristes sur le territoire national et à

l’étranger.

Sa finalité est donc aussi la protection de l’emploi, des personnes et des biens.