Posted on : Thursday 29 September 2016

Job title : 2016/09/29 Post-doctoral position in spinal cord MR analysis methods and markers, Rennes

Organization : VisAGeS U746 is a research team from Rennes 1 University, jointly affiliated with Inserm and Inria. It is also part of the IRISA (UMR CNRS 6074) and is located in Rennes, France on both medical and science campuses. The objective of the team is to work jointly with clinicians, radiologists from the university hospital to propose new advances in medical image processing. Among others, the team is involved in multiple sclerosis (MS) image processing studies, in close collaboration with neurologists and radiologists. MS is a frequent neurological, inflammatory and demyelinating, disease affecting young adults, and is a source of several disabilities, including ambulatory.

Mission : An ongoing national longitudinal multicenter study, lead by Rennes, is investigating the link between spinal cord MR imaging and ambulatory disabilities (EMISEP). To date, most of the many MRI studies have focused on brain MRI but interest in spinal cord MRI is growing. Advanced spinal cord MR imaging remains challenging due to the small volume of the cord as well as to respiratory and
cardiac motion. Several MRI sequences are acquired each year, as part of the EMISEP imaging protocol, to visualize focal lesions, evaluate spinal cord volume or diffuse lesions using diffusion and magnetization transfer imaging.

The main goal of this post-doctoral position will be to develop and evaluate new methods for spinal cord MR analysis and derive markers of spinal cord burden related to ambulatory disability. Therefore, the work will encompass several methodological tasks starting with registration between different MR sequences and between different time points in the same subject, and between different subjects at a given time point. This work will, among others, rely on methods developed in the research team.

The second challenge will be devoted to the extraction of regions of interest in the spinal cord, whether white matter, gray matter, lesions or spinal cord tracts, using tools available from the literature or adapted from similar tasks on brain MRI for this purpose.
The post-doctorate will further use all these tools to process the EMISEP database in order to evaluate both focal and diffuse burden as well as their evolution in time. The correlation between these markers and clinical scores acquired in parallel will then be investigated.

From a methodological perspective, this work will deal with
• registration between modalities, time points and patients
• segmentation of the spinal cord and MS lesions
• distortion correction
• statistical comparisons between imaging and clinical scores

Duration: One year, renewable, starting from September 2016

Locality : This post-doctoral position will take place at Inria/IRISA, UMR CNRS 6074, in the VisAGeS U746 research team. The work will be conducted in close link with the MRI experimental platform at Neurinfo (http://www.neurinfo.org) and the neurologists and radiologists involved in the project.

Remuneration : around 2100 €/month

Degrees required : This work will require strong knowledge in the fields of applied mathematics (statistics, optimization), and image processing (image segmentation, registration…). A PhD thesis in one of those fields will thus be required.

Skills required : A good knowledge of computer science tools will also be required, especially in object oriented programming (C++), Matlab or python

Contact : Olivier Commowick (olivier.commowick[at]inria.fr) Elise Bannier (elise.bannier[at]irisa.fr) Anne Kerbrat (anne.kerbrat[at]chu-rennes.fr)