Dumontier Lab

Towards Personalized Medicine

News

Ten papers out of 18 presented at the ISMB affiliated Bio-Ontologies Workshop were selected for submission to a special issue of the Journal of Biomedical Semantics. Of the three submissions with Michel Dumontier as a co-author, two were selected for the special issue:
1. The Translational Medicine Ontology: Driving personalized medicine by bridging the gap from bedside to bench.
2. HyQue: Evaluating hypotheses using Semantic Web technologies

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They're not your typical cartographers. Researchers from the National Research Council's Canada Institute for Scientific and Technical Information (NRC-CISTI) and Carleton University have produced a map of science that aims to make it easier to navigate through millions of scientific research articles. Click here for more information.

The OWL: Experiences and Direction (OWLED) workshop series aims at bringing users, implementors and researchers from academia and industry together to describe applications of OWL, to share experience, and to discuss extensions to the language for satisfying application requirements. The workshop will allow the OWL community to set an an agenda for research and deployment in order to incorporate OWL-based technologies into new applications. Click here for more information.

A national team of biomedical researchers, including Carleton University's Michel Dumontier, has been funded for a major project that could revolutionize the way biomedical researchers share and access information. Canada's Advanced Research and Innovation Network, CANARIE, awarded $927,000 to the Canadian Bioinformatics Resources As Semantic Services (C-BRASS) project to integrate different databases and web services into one intelligent network and train Canadians to use them. Click here for more information.

Please join us for this 3 day workshop May 13-15, 2009 to learn more about Cell BE programming. Discover how its unique design enables allows a wide variety of high performance workloads across a number of industries including digital media,medical imaging, aerospace, defense and communications and financial services. Click here for more information.

Please join us for this 2 day workshop to learn more about Cell BE programming and it's architecture. Discover how its unique design allows Cell to support a wide variety of high performance workloads across a number of industries including digital media,medical imaging, aerospace, defense and communications and financial services. Learn about programming techniques, which harness the power of Cell and are key to attaining the high compute performance of which it is capable. Click here for more information.

The workshop encourages participation from industry and academia with an emphasis on the practical aspects of applying Semantic Web technologies to the challenges of Health Care and the Life Sciences. We encourage participation from Pharmaceutical and Biotech Companies, Health Care Organizations, Universities and Research Institutes, IT Vendors, and Government Agencies. Click here for more information.

Michel Dumontier, Assistant Professor of Bioinformatics, Department of Biology, Institute of Biochemistry and School of Computer Science with co-investigator Dr. James Green, Assistant Professor, Department of Systems and Computer Engineering have obtained $114,628 in funding from the Canadian Foundation for Innovation (CFI). Their research towards personalized medicine aims to improve the effectiveness of a drug treatment by considering an individual's genetic background and current health indicators. This CFI project will enable the researchers to develop real-time biomedical data processing systems using the high performance Sony PlayStation 3 CELL BE processor, ultimately leading to new diagnostic and therapeutic solutions that will improve the health and safety of Canadians. Click here for more information.

SMART (Semantic web information Management with Automated Reasoning Tool) is an open-source project, which aims to provide intuitive tools for life scientists for represent, integrate, manage and query heterogeneous and distributed biological knowledge. Click here for more information.

Congratulations to Leo for successfully passing his PhD transfer exam! Click here for more information.

Released: An ontology of time intervals. From second to millenium. Ontology located at http://ontology.dumontierlab.com/time-interval-primitive. Click here for more information.

Released: An ontology for the description of statistical graphs. Ontology located at http://ontology.dumontierlab.com/statistical-graph-complex. Click here for more information.

A set of ontologies pertaining from measurement values, units, atoms and molecules have been released. Click here for more information.

Functional groups describe the semantics of chemical reactivity in terms of atoms and their connectivity, which exhibit characteristic chemical behavior when present in a compound. In this paper, we take a first step towards designing an OWL-DL ontology of functional groups for the classification of chemical compounds. We highlight the capabilities and limitations OWL 1.0 and the proposed OWL 1.1 in terms of our domain requirements. We also illustrate how cyclic structures may be identified from SWRL rules and suggest extensions for reasoners to achieve this objective. This work represents a preliminary step towards describing, reasoning and querying about structure and function of molecules. Click here for more information.

The integration of data from heterogeneous sources is an ongoing challenge for the scientific community. The semantic web initiative provides a new knowledge engineering framework to represent, query and share information. In this paper, we describe our efforts towards the development of an ontology-driven knowledge base that allows semantic query answering of yeast knowledge. Click here for more information.

NSERC has awarded Dr. Michel Dumontier $75,000 towards the development of novel approaches for biochemical knowledge managements using semantic web technologies. This research aims to capture the semantics of biochemical structure such that computer-based inferences about function become possible. This research has the potential to form a cornerstone of the newly emerging semantic web so as to provide biochemical knowledge in a format that is amenable to computer-based reasoning. Click here for more information.

Michel Dumontier, Ph.D.
Carleton University
michel_dumontier [at] carleton [dot] ca