EU Project Informatics Alignment Workshop

Imperial College LondonApril 24th-25th

Nicolas Sapay & Artem Khlebnikov BIOASTER

What is BIOASTER• An independent technology research institute focused on infectious disease &

microbiota– Multi-partner research projects– Multi-technology data production capabilities resulting in clinical, phenotypic, organ, cellular

and molecular/omics data (single source or combination of multiple sources)– Development of data integration and analysis tools for infectious disease and microbiota

research communities

• Funded by “Investment for the Future” program & private contributions

• Time frames : 9 years (2012 - 2020)

• Founders

Paris and Lyon-based innovative companies

BIOASTER is supported by the French Government (up to €180M over 9 years) through its strategic “Investment for the Future” program and the local authorities (Grand Lyon, Région Rhône Alpes) for its facilities in Lyon.

3 Public Research Institutions

2 Co-founding leaders

3 Life science companies

40+SMEs

Data types collected by BIOASTER

Data Type1 Standards Platform Date availability

Restricted access 2,3

tranSMART support

Clinical Not defined (CDISC?)

• Electronic case report form

July 2015 Yes Yes

Next Generation Sequencing

Fastq, Fastqc • Illumina • Roche

• Life Technologies

Available Yes Yes

NMR Not defined • Brucker Available Yes Not yet

Mass spectrometry

Not defined • Brucker• Thermo Scientific

Available Yes Not yet

Cytometry Not defined • Fluidigm •Miltenyi

Available Yes Not yet

Imaging Not defined Available Yes No ?

1 Molecular/omics data highlighted in blue2 Possibility to release the restriction 3 Possibility to produce unrestricted access data

• Curation tools for miscellaneous data formats

• Loading and visualization of the molecular/omics data from human or microorganisms

ex. genomics, transcriptomics, cytometry and metabolomics

• Loading and visualisation of multispecies data ex. metatranscriptomics in microbiota…

• Integration or interfacing of tranSMART with in-house scriptsex. R, Matlab…

• Support for legal and ethical issues in clinical data collection

N.B. Restricted access as a function of the project partern’s data ownership .

Specific needs for BIOASTER