May 21st, 2012

"Imaging cell-cell junction one at a time or in large number" by Virgile VIASNOFF

In this talk I will show some of the progresses we have made to culture cells in microwells that provide 3d chemically controlled environments. I will show how we took advantage of this technology to perform high speed and high resolution imaging of cell-cell junction dynamics. I will also explain the different challenges we encounter to perform our image analysis.
In a second part I will show how the microwells can be used to grow hepatocytes. I will explain our plans to build a high throughput plateform for drug screening and the related image analysis problems we forsee.

"Using Formal Models for analysis of Biological Pathways" by Blaise GENEST

We will first describe the biological problems we are facing (building a model of a Biological Pathway), before talking about the usual methods used by computer scientist to tackle such problems.
We will finally describe the stochastic modeling used in IPAL for the biological pathways, and explain the decomposition framework we are developing to speed up the computations.


"The MICO Project: COgnitive MIcroscopy for Breast Cancer Grading" by Ludovic ROUX

In close collaboration with AGFA Healthcare and La Pitié Salpêtrière Hospital, Paris, France, IPAL’s MICO (COgnitive virtual MIcroscopy)platform aims at developing a cognition-driven visual explorer for histopathology, particularly for breast cancer grading, supported by dynamic semantic annotation and medical ontology. The analysis capabilities and results are made available to the pathologist through a platform combining virtual microscopy and cognitive reasoning. This allows the medical staff to interact with the platform at the appropriate level of abstraction. The platform should combine multi-modal histopathological images, multi-scale whole slide image (WSI) exploration analysis, and medical knowledge representation inference using ontologies.
Semantic tools should be used to drive image exploration & analysis. A semantic profile should be provided to each algorithm, allowing high flexibility and good knowledge gathering. Medical knowledge should also be integrated into MICO, improving it’s abilities to interact with the histopathologist users, helping them to make the right choices.