Follow this link to get directions to the workshop location.

Program as [pdf].

The online registration for MIAAB 2011 has been closed. To participate in the workshop you can register onsite. Please send an Email to Stephanie Werner-Ried (s.werner-ried@dkfz.de), who will record your name for paying the registration fee (100 Euro).

Program:

9:30-10:30 Invited Talk

• CellOrganizer: Image-derived Models of Subcellular Organization over Time and Space Robert F. Murphy, Carnegie Mellon University, Pittsburgh/PA, USA

10:30-11:00 Coffee break

11:00-12:20 Oral Session 1: Segmentation of Microscopy Images
Session Chair: Christophe Zimmer

• Fluorescence Image Segmentation by using Digitally Reconstructed Fluorescence Images
  Clemens Blumer, Cyprien Vivien, Thomas Oertner, Thomas Vetter, University of Basel
• Two-Step Watershed Segmentation of Epithelial Cells
  Kevin Keraudren, Martin Spitaler, Vania M.M. Braga, Daniel Rueckert, Luis Pizarro, Imperial College London
• 3D Model-Based Quantification of EGF Receptor Internalization from Three-Channel 3D Microscopy Images
  Stefan Wörz, Eileen Reinz, Angel Alonso, Karl Rohr, University of Heidelberg, DKFZ Heidelberg
• TICAL - a web-tool for multivariate image clustering and data topology preserving visualization
  Daniel Langenkämper, Jan Kölling, Sylvie Abouna, Michael Khan, Karsten Niehaus, Tim W. Nattkemper, University of Bielefeld, University of Warwick

12:30-13:30 Lunch break

13:30-14:50 Oral Session 2: Analysis of time-resolved images
Session Chair: Jens Rittscher

• Dynamic Time Warping for Automated Cell Cycle Labelling
  Amr El-Labban, Andrew Zisserman, Yusuke Toyoda, Alex Bird, Anthony Hyman, University of Oxford, Max Planck Institute of Molecular Cell Biology and Genetics, Dresden
• Large-Scale Tracking for Cell Migration and Proliferation Analysis and Experimental Optimization of High-Throughput Screens
  Nathalie Harder, Richa Batra, Sina Gogolin, Nicolle Diessl, Roland Eils, Frank Westermann, Rainer König, Karl Rohr, University of Heidelberg, DKFZ Heidelberg
• Efficient fluorescence image normalization for time lapse movies
  Michael Schwarzfischer, Carsten Marr, Jan Krumsiek, Philipp S. Hoppe, Timm Schroeder, Fabian J. Theis, Helmholtz Zentrum München, Technische Universität München
• Learning to Count Cells: Applications to Lens-free Imaging of Large Fields
  Giselle Flaccavento, Victor Lempitsky, Iestyn Pope, Paul Barber, Andrew Zisserman, J. Alison Noble, Boris Vojnovic, University of Oxford

15:00-16:30 Poster Session

16:30-17:00 Coffee Break

17:00-18:20 Oral Session 3: Classification and Machine Learning
Session Chair: Karl Rohr

• Optimal Parameter Selection for an Image Processing Algorithm Through Active Learning
  David Sheehan, James Muir, Josef Kittler, Lewis Griffin, University College London
• Phenotype Classification of Zebrafish Embryos by Supervised Learning
  Nathalie Jeanray, Raphaël Marèe, Benoist Pruvot, Olivier Stern, Pierre Geurts, Louis Wehenkel, Marc Muller, University of Liège
• A circle-based method for detection of neural fibre cross-sections in classically stained 2D electron micrographs
  Martin O'Reilly, Arnd Roth, Michael Häusser, Lewis D. Griffin, University College London
• Detection and Classification of Nano-Objects in Biosensor Data
  Dominic Siedhoff, Frank Weichert, Pascal Libuschewski, Constantin Timm, TU Dortmund

Poster Presentations

• Analysis of nociceptive neurons by quantitative automated microscopy (QuAM) - a tool for investigation inflammatory and chronic pain states
  Christine Andres, Rene Buschow, Tim Hucho, Max Planck Institute for Molecular Genetics, Berlin, Freie Universität Berlin
• Evaluation of cell-tracking algorithms with respect to the characteristics of bioimages
  Yusuke Azuma, Shuichi Onami, RIKEN, Japan
• Three dimensional cell nuclei extraction from fluorescence microscopy images using locally adaptive threshold
  M. Khayrul Bashar, Koji Komatsu, Toshihiko Fujimori, Tetsuya Kobayashi, University of Tokyo, National Institute for Basic Biology, Aichi, Japan
• Unbiased digital image based quantification of IGF pathway signalling responses in Ewing sarcoma of bone
  Claudia Buehnemann, Haiyue Yu, Simon Li, Harriet White, Alison Noble, Bass Hassan, University of Oxford
• Super-resolution Fluorescence Imaging of Biological Nanostructures
  Christoph Cremer, University of Heidelberg, Institute of Molecular Biology, Mainz
• Evaluation of an interactive cell segmentation for fluorescence-microscopy based on the Graph Cut algorithm
  Claudia Dach, Christian Held, Jens Wenzel, Sophia Gerlach, Roland Lang, Ralf Palmisano, Thomas Wittenberg, Fraunhofer IIS, University of Erlangen
• Probabilistic Multi-Target Tracking Approach to Motion Analysis of Stress Granules
  Oliver Gress, Nadine Stöhr, Stefan Hüttelmaier, Stefan Posch, Martin Luther University Halle-Wittenberg
• Hierarchical Recognition System for Microscopic Images Using Histogram Measure and Feature Selection
  Pei-Fang Guo, Prabir Bhattacharya, University of Cincinnati, OH, USA
• A framework for autophagy study based on machine learning
  Xiaoyun Huang, Anne Hamacher-Brady, Nathan Brady, DKFZ Heidelberg, University of Heidelberg
• A Framework for Molecular Co-Expression Pattern Analysis in Multi-Channel Toponome Fluorescence Images
  Ahmad Humayun, Shan-e-Ahmed Raza, Christine Waddington, Sylvie Abouna, Michael Khan, Nasir M. Rajpoot, University of Warwick
• Non-Invasive Imaging-Based Monitoring for Characterisation and Optimisation of Embryonic Stem Cell Processes
  Nicolas Jaccard, Rhys Macown, Farlan Veraitch, Nicolas Szita, Lewis Griffin, University College London
• Automatic particle picking using diffusion filtering and random forest classification
  Paul Joubert, Stephan Nickell, Florian Beck, Michael Habeck, Michael Hirsch, Bernhard Schölkopf, Max Planck Institute for Intelligent Systems, Tübingen, Max Planck Institute of Biochemistry, Martinsried
• A stereoscopic approach for three dimensional tracking of marine biofouling microorganisms
  Stojan Maleschlijski, Laura Leal-Taixé, Sebastian Weiße , Alessio Di-Fino, Nicholas Aldred, Anthony Clare, Hernán Sendra, Bodo Rosenhahn, Axel Rosenhahn, Karlsruhe Institute of Technology, Leibniz University Hannover, Ruprecht-Karls-University Heidelberg, Newcastle University
• A web-based framework for visualization, annotation, and automatic exploitation of high-resolution bioimages
  Raphaël Marée, Benjamin Stévens, Loëc Rollus, Natacha Rocks, Didier Cataldo, Louis Wehenkel, University of Liège
• Quantification of Golgi Complex Assembly and Disassembly in Live Cell Fluorescence Microscopy Images
  Petr Matula, Tautvydas Lisauskas, Vytaute Starkuviene, Karl Rohr, University of Heidelberg, DKFZ Heidelberg, Masaryk University, Brno
• Automated Image Analysis of the Interaction between Phagocytes and Aspergillus fumigatus during Infection
  Franziska Mech, Andreas Thywißen, Reinhard Guthke, Axel Brakhage, Marc Thilo Figge, Leibniz Institute for Natural Product Research and Infection Biology - Hans-Knöll-Institute (HKI), Friedrich Schiller University, Jena
• MiCA - Easy Cell Image Analysis with Normalized Snakes
  Birgit Möller, Stefan Posch, Martin Luther University Halle-Wittenberg
• Denoising and detection of Her2/neu gene amplification in fluorescence microscopic data
  Jenny Wagner, Eberhard Schmitt, Florian Riede, Michael Hausmann, Jürgen Hesser, University of Heidelberg, Kantonsspital Basel