| 15:00-16:00 Anke Meyer-Baese Department of Electrical & Computer Engineering, FAMU-FSU College of Engineering, Florida State University Title: Pattern Analysis and Visualization in Computer-Aided Diagnosis:Cross-Fertilization between Biomedical Imaging and Engineering Abstract: Technical innovations in medical cross-sectional imaging have opened up new vistas for the exploration of the human body, enabling both high spatial and temporal resolution. However, these techniques have led to vast amounts of image data whose precise and reliable visual analysis by medical doctors and bioscientists requires a considerable amount of human intervention and expertise, thus resulting in a cost factor of substantial economic relevance. Hence, the computer-assisted analysis of medical image data has moved into the focus of interest as an issue of high priority research efforts. The talk covers novel methods for pattern analysis, visualization and computer-aided diagnosis in the field of biomedical imaging, specifically MRI, such as functional MRI for human brain mapping, dynamic cerebral contrast-enhanced perfusion MRI and new approaches to breast cancer diagnosis in MRI mammography. An outlook to topical projects in systems biology confirms the broad applicability of the presented methods.
|
| 11:00-12:00 Robert Murphy Professor of Biological Sciences, Biomedical , Engineering, and Machine Learning, Director, Ray and Stephanie Lane , Center for Computational Biology, Carnegie Mellon University Title: Automated Determination and Modeling of Subcellular Location for Systems Biology see --> http://murphylab.web.cmu.edu/
for his projects. |
| 11:00-12:00 Christian Tischer Spatial Regulation of Microtubule Dynamics in Fission Yeast Christian Tischer 1, Damian Brunner 2, and Marileen Dogterom 1 1. FOM Institute for Atomic and Molecular Physics (AMOLF), Kruislaan 407, 1098 SJ Amsterdam, The Netherlands 2. European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany Microtubules are protein polymers that form an integral part of functional cytoskeletal networks inside eukaryotic cells. Specific microtubule networks are central to the organization of the intracellular space and they are involved in the control of cell morphology. To understand how microtubules fulfill these functions it is important to understand how the lengths of microtubules are adapted to cell size and shape. In fact, individual microtubules typically have no fixed length but constantly switch between a growing and a shrinking state in a process termed dynamic instability. One of the keys to better understand microtubule function is to investigate how the rates that govern microtubule dynamics are regulated inside cells. In interphase fission yeast (S. Pombe) cells, microtubule catastrophes occur preferentially at the distal ends of elongating cells, but the mechanism by which this spatial selectivity is obtained is not yet understood. We developed automated image analysis procedures to measure microtubule catastrophe rates with unprecedented statistics and at high spatial resolution. We find that: (i) pushing forces generated by growing microtubules induce catastrophes specifically at the cell poles; and (ii) long microtubules undergo catastrophes more often than short ones. Moreover, we show that the microtubule destabilizing motor proteins Klp5/Klp6 enhances the catastrophe rate in a spatially selective way. |
| 14:00-14:30 Jerome Solon (EMBL Heidleberg) "Image processing using Matlab: Applications in particle and cell detection" 14:30-15:00 Kota Miura (EMBL Heidelberg) "Measurement and Evaluation of Cell Migration: Part I" |
| 14:00-15:00 Shigenori Nonaka (Dept. of Imaging Science, National Institute of Basic Biology, Okazaki) "Symmetry break in mammalian development: Left-right determination" references: "Randomization of left-right asymmetry due to loss of nodal cilia generating leftward flow of extraembryonic fluid in mice lacking KIF3B motor protein. " Nonaka et al. Cell. 1998;95:829–837. [Link] "Determination of left–right patterning of the mouse embryo by artificial nodal flow" Nonaka et al. Nature 418, 96-99 (4 July 2002) [Link] "De Novo Formation of Left–Right Asymmetry by Posterior Tilt of Nodal Cilia" Nonaka et al. PLoS Biol. 2005 August; 3(8): e268. [Link] |
| 14:00-15:00 Young-Tae Chang (Department of Chemistry, New York University ) "Colorful Chemical Genetics" Abstract: With the successful result of Human Genome Project, we are facing the problem of handling numerous target genes whose functions remain to be studied. In chemical genetics, instead of using gene knock-out or overexpression as in conventional genetics, a small molecule library is used to disclose a novel phenotype, eventually for the study of gene function. The most serious bottleneck of modern chemical genetics is target identification. To surrogate the currently popular affinity matrix technique, our group has developed fluorescence libraries for a visualization of the biological events. High throughput strategy using colorful chemical genetics will open the efficient road to chemical genomics and proteomics. (see Young-Tae Chang lab URL --> Link) |
| 14:00-15:00 Emre Yaksi (Department of Biomedical Optics, Max-Planck-Institute for Medical Research ) "Imaging odor responses in zebrafish forebrain by using two-photon microscopy" Marco Marcello recommended him for giving a talk at the CMCI seminar. The way he analyzes image data is very interesting. (see Yaksi & Friedrich (2006) Nature Method 3: 377 --> Link) |
| 14:00-15:00 SIMIBiocell demonstration: Prof. Ralf Schnabel (Technical University of Braunschweig) "SIMIBiocell a software to evaluate 4D-microscopic records: documentation of development, cell behavior, gene expression and bioinformatical analyses" (--> Link) Antje Fischer @ Arendt lab has interest in this software for tracking of cell lineages.4D sequences are manually tracked and their lineage are documented simultaneously to the pre-defined "template"lineage tree. |
| 16:00-16:30 Chaitanya
Athale "Software
presented at the Computational Cell Biology Meeting, 6-9 Mar 2007 "
30min 16:30-17:00 Philippe Girard "Regulation of intercellular junctions by nanopatterned adhesive interfaces" 30min |
| CMCI Mini-Symposium: Progress of
Mathematical Morphology in Biology An extended CMCI seminar by five members of Centre of Mathematical Morphology (CMM) in the Paris Schools of Mines and two talks by EMBL staffs (see below). The seminar will be shown in EBI as well, by live video conference. 9:00-9:30 Image
Analysis and data mining in a genome wide RNAi screen by time lapse
imaging in order to identify mitotic genes
Thomas Walter (CMCI + Mitocheck, EMBL) [Abstract] 9:30-10:00 "Presentation
of the Centre of Mathematical Morphology "
Fernand Meyer (Centre of Mathematical Morphology, Ecole des Mines de Paris) [Abstract] 10:00-10:15 "Presentation
of the Centre of Computational Biology"
Christian Lajaunie (Centre of Mathematical Morphology, Ecole des Mines de Paris) 10:15-10:45 "Kernel
methods for bioinformatics and vision"
Francis Bach (Centre of Mathematical Morphology, Ecole des Mines de Paris) [Abstract] 11:00-11:30 "Image
processing in electron microscopy"
Achilleas Frangakis (Strunctural & Computational Biology Unit, EMBL) 11:30-11:45 "Morphological-based
robust
segmentation of cell assays in HCS"
Beatriz Marcotegui (Centre of Mathematical Morphology, Ecole des Mines de Paris) [Abstract] 11:45-12:00 "A
package for statistical analysis and modelling of cell array data."
Christian Lajaunie (Centre of Mathematical Morphology, Ecole des Mines de Paris) [Abstract] 12:00-12:15 "Ontology-based
lymphocyte population description using mathematical morphology on
colour blood images"
Fernand Meyer (Centre of Mathematical Morphology, Ecole des Mines de Paris) [Abstract] |