Section: Partnerships and Cooperations

International Initiatives

Inria International Labs:SNOWFLAKE

Participants : Adrien Coulet [contact person] , Malika Smaïl-Tabbone.

Inria@SiliconValley

Associate Team involved in the International Lab: SNOWFLAKE

• Title: Knowledge Discovery from Linked Data and Clinical Notes

• International Partner (Institution - Laboratory - Researcher):

  • Stanford (United States) - Department of Medicine, Stanford Center for Biomedical Informatics Research (BMIR) - Nigam Shah

• Start year: 2014

• See also: http://snowflake.loria.fr/

Snowflake (http://snowflake.loria.fr/ ) is an Inria Associate Team which started in 2014. It is aimed at facilitating the collaboration between researchers from the Inria Orpailleur team and the Stanford Center for Biomedical Informatics Research, Stanford University, USA. The main objective of Snowflake is to improve biomedical knowledge discovery by connecting Electronic Health Records (EHRs) with LOD (Linked Open Data). Such a connection would help to complete domain knowledge w.r.t. EHRs. The initial focus of Snowflake is the identification and characterization of groups of patients w.r.t. (adverse) reactions to drugs. Identified features associated with such groups of patients could be used as predictors of over- or under-reactions to some drugs. The considered use case is related to pharmacogenomics drugs, i.e., drugs known to cause variable effects depending on the genetic profile of patients. Data associated with pharmacogenomics drugs and their mechanisms are available in LOD and, once connected to EHRs, they can be used to classify drugs and then patients showing a specific reaction profile to a given group of drugs.

Participation In other International Programs: Ciência Sem Fronteiras

Participant : Amedeo Napoli [contact person] .

Program “Ciência Sem Fronteiras” is a Brazilian research fellowship which provides a funding for the stay of a visiting French researcher in Brazil at Universidade Federal Pernambuco Recife for three years. The on-going project is called “Formal Concept Analysis as a Support for Knowledge Discovery” and is aimed at combining FCA methods with numerical clustering methods used by Brazilian colleagues. This project is supervised in Brazil by Professor Francisco de A.T. de Carvalho (CIn/UFPE).

The project aims at developing and comparing classification and clustering algorithms for complex data (especially interval and multi-valued data). Two families of algorithms are studied, namely “clustering algorithms” based on the use of a similarity or a distance for comparing the objects, and “classification algorithms in Formal Concept Analysis (FCA)” based on attribute sharing between objects. The objectives here are to combine the facilities of both families of algorithms for improving the potential of each family in dealing with more complex and voluminous datasets.

STIC AmSud: Autonomic Knowledge Discovery (AKD)

Participants : Victor Codocedo, Amedeo Napoli [contact person] .

This research project involves researchers with different specialties, from Brazil (Universidade Federal Rio Grande do Sul), from Chile (UFSM Santiago and Valparaiso), from Uruguay (Universidad de la Repùblica), and the Orpailleur Team. The projects targets the design of solutions able to proactively understand the behavior of systems and networks in order to prevent vulnerable states. Accordingly, we aim at integrating knowledge discovery techniques within autonomic systems in order to provide intelligent self-configuration and self-protection mechanisms. The results of this project may not only benefit to end-users but also highly contribute to the scientific community by providing solid foundations for the development of more secure, scalable, and reliable management approaches.

Miscellaneous

Participants : Mehwish Alam, Aleksey Buzmakov, Victor Codocedo, Adrien Coulet, Amedeo Napoli [contact person] , Chedy Raïssi, Jean-Sébastien Sereni, Mario Valencia.

• An on-going collaboration involves the Orpailleur team and Sergei Kuznetsov at Higher School of Economics in Moscow (HSE). Amedeo Napoli visited HSE laboratory several times (with the support of HSE) while Sergei Kuznetsov visited Inria Nancy Grand Est several times too. The collaboration is materialized by the joint supervision of the thesis of Aleksey Buzmakov and the organization of scientific events, and in particular the workshop FCA4AI whose fifth edition should take place this year in August at ECAI 2016 (see http://www.fca4ai.hse.ru ).

• LEA STRUCO is an “Associated International Laboratory” of CNRS between IÚUK, Prague, and LIAFA, Paris. It focuses on high-level study of fundamental combinatorial objects, with a particular emphasis on comprehending and disseminating the state-of-the-art theories and techniques developed. The obtained insights shall be applied to obtain new results on existing problems as well as to identify directions and questions for future work. Jean-Sébastien Sereni is the contact person for LEA STRUCO which was initiated when Jean-Sébastien was a member of LIAFA.