Special Sessions

Multi-scale Biological Modalities for Physiological Human Articulations

Chair: Prof. Nadia Magnenat-Thalmann
June 11th,2014 (15:30 - 18:30)

Prof. Franz-Erich Wolter
Leibniz University of Hanover, Germany

Title: Visualization Understanding of and Interaction with Medical and Scientific Data

Prof. Daniel Thalmann
Nanyang Technological University, Singapore and EPFL, Switzerland

Title: Contact Modeling and Collision Detection in Human Joints

Matthias Becker
MIRALab, University of Geneva, Switzerland

Title: Anatomical modelling for the multi-scale human

Dr. Honfai Choi
MIRALab, University of Geneva, Switzerland

Title: Modeling fiber anisotropy in multiscale musculoskeletal soft tissues

Andra Chincisan
MIRALab, University of Geneva

Title: Multimodal and multiscale modeling of the human knee articulation


Computer Graphics in Biomedical and Biological Imaging Data

June 10th,2014 (13:30 - 17:45)

Biomedical and biological imaging has revolutionised modern healthcare. The reliance on imaging is producing vast amounts of data (Big data) that are problematic to assimilate using conventional image analysis and visualisation techniques. The final stage of any imaging is to visualise it with innovative use of computer graphics.

This workshop will bring experts from both the computer graphics and the biomedical / biological imaging communities, as well as to extend to other fields that works with big data, to generate interest, enthusiasm and interactions among the communities and act as a catalyst for further collaboration.

Prof. David Dagan Feng
University of Sydney, Australia

Title: Advancing Biomedical Visualization through Image Processing and Analysis

Abstract: Biomedical imaging has revolutionised modern healthcare. The reliance on imaging is producing vast amounts of data, such that the technological gap between image acquisition and visualization has never been so broad. This has accelerated the development of sophisticated image visualisation techniques that rely on image processing and analysis algorithms to augment and enhance the images. Apart from the imaging data, there exists a wealth of valuable knowledge that are derived from the accumulation of massive and heterogeneous image databases of patient population (knowledgebase), such as image atlases, disease models and classifications, statistical shape models of e.g., major organs, related / similar images (inter- and intra- patient), which are becoming an important component of image analysis and subsequent visualisations. In this presentation, we will discuss the important roles of state-of-the-art image processing for use in biomedical image analysis and visualisation of these imaging data. Although applicable to all types of biomedical images, we will focus our discussions to the modern multi-modality biomedical imaging of positron emission tomography (PET) / computed tomography (CT) which acquires co-aligned molecular and anatomical images in a single scan session.

Speaker's Biography: Professor (David) Dagan Feng received his ME in Electrical Engineering & Computer Science (EECS) from Shanghai Jiao Tong University in 1982, MSc in Biocybernetics and PhD in Computer Science from the University of California, Los Angeles (UCLA) in 1985 and 1988 respectively, where he received the Crump Prize for Excellence in Medical Engineering. He is currently Head of School of Information Technologies and Research Director of the Institute of Biomedical Engineering and Technology at the University of Sydney, as well as Advisory and Guest Professor of a number of Universities. He has published around 700 research papers, pioneered several new research directions, and made a number of landmark contributions in his field. He has supervised / co-supervised over 150 students / postdoc research fellows, many of whom are now full professors. He has chaired / organized more than 100 major international conferences; been Associate Editor or Editor Board Advisor / member for a dozen of top journals related to his research areas; served as Chair of the IFAC Technical Committee on Biological and Medical Systems and several other professional organizations; served as panel member for a number funding bodies and advisory boards; and been invited to delivered more than 100 keynote presentations and lecturers in 23 countries and regions. He has been elected as Fellow of ACS, HKIE, IET, IEEE and Australian Academy of Technological Sciences and Engineering.

Prof. Ming C. Lin
University of North Carolina, USA

Title: Cancer Staging Using Physically-based Simulation and Medical Image Analysis

Abstract: Currently, cancer screening is usually performed through palpation examination or routine blood tests. When a potential case is identified, a biopsy of randomly sampled areas of the affected organ is then used to diagnose the cancer and assess its aggressiveness. Biopsy may miss sampling cancerous tissues, resulting in missed or delayed diagnosis, and miss areas with aggressive cancers, thus under-staging the cancer and leading to under-treatment. In this talk, I present a biomechanically accurate algorithm to determine patient-specific tissue elastic parameters using physics-based simulation and image analysis. I will describe a novel method to simultaneously estimate tissue elasticity parameters and deformation fields based on pairs of images, using a finiteelement based biomechanical model derived from an initial set of images, local displacements implied by image cues, and an optimization-based framework.

To accelerate the optimization process, I also introduce a dimension-reduction technique to allow a trade-off between the computational efficiency and desired accuracy. The reduced model is constructed using statistical training with a set of example deformations. We show the computational framework applied to computer animations of elastic bodies and 3D elastography. Our study also suggests that tissue (i.e. prostate) elasticity is correlated with the aggressiveness of prostate cancer.

Speaker's Biography: Ming C. Lin is currently John R. & Louise S. Parker Distinguished Professor of Computer Science at the University of North Carolina (UNC), Chapel Hill and an Honorary Professor at Tsinghua University in Beijing, China. She obtained her B.S., M.S., and Ph.D. in Electrical Engineering and Computer Science from the University of California, Berkeley. She received several honors and awards, including the NSF Young Faculty Career Award in 1995, Honda Research Initiation Award in 1997, UNC/IBM Junior Faculty Development Award in 1999, UNC Hettleman Award for Scholarly Achievements in 2003, Beverly W. Long Distinguished Professorship 2007-2010, Carolina Women's Center Faculty Scholar in 2008, UNC WOWS Scholar 2009-2011, IEEE VGTC Virtual Reality Technical Achievement Award in 2010, and eight best paper awards at international conferences. She is a Fellow of ACM and IEEE.

Her research interests include physically-based modeling, virtual environments, sound rendering, haptics, robotics, and geometric computing. She has (co-)authored more than 240 refereed publications in these areas and co-edited/authored four books. She has served on over 120 program committees of leading conferences and co-chaired dozens of international conferences and workshops. She is currently the Editor-in-Chief (EIC) of IEEE Transactions on Visualization and Computer Graphics, a member of 6 editorial boards, and a guest editor for over a dozen of scientific journals and technical magazines. She also has served on several steering committees and advisory boards of international conferences, as well as government and industrial technical advisory committees.

Prof. Qing Li
University of Sydney, Australia

Title: Computational dentofacial modelling - from anatomical imagining to biomechanical analysis


Speaker's Biography: Dr Qing Li received his PhD from University of Sydney in 2000 and postdoc training from Cornell University, USA. He was an Australian Doctoral Research Fellow at University of Sydney 2001-03, then a senior lecturer in James Cook University 2004-06. He returned to University of Sydney as a sesqui senior lecturer in 2006 and was promoted to associate professor in 2010 and full professor in 2014. He is now an ARC Future Fellow. His interests are in computational modelling, computational biomechanics, computational biomaterials and scaffold tissue engineering.

Dr. Karsten Klein
University of Sydney, Australia

Title: Visual Analytics for Biomedical Data - Improved Understanding through Exploratory Analysis

Abstract: Visual Analytics integrates automated data analysis and the capabilities of a human expert in an interactive analysis process. By using visual interactive interfaces that allow the user an exploratory analysis of data sets, the strengths of computers and humans are combined to facilitate analytical reasoning. Exploiting computer graphics for visual analysis of biomedical data fosters the understanding of the underlying biological mechanisms, and helps to identify patterns and trends. Well designed approaches guide the user to explore only the most relevant data and consequently improve the efficiency of the knowledge discovery process.

Many visual analytics approaches for biomedical data thus have been proposed in recent years, e.g. for image retrieval, image segmentation, and omics data. We discuss the principles used in visual analytics for biomedical data, give an overview on the state of the art in selected areas (brain networks, image retrieval), and present several practical approaches.

Speaker's Biography: Karsten Klein is currently a postdoctoral research associate at the University of Sydney, where he works on the visualization of data from real world applications. A focus of his work is on visual analytics approaches for data from the life sciences. In a linkage project with Tom Sawyer Software he develops approaches that help domain experts from a variety of areas to visually analyze and understand their data, including biological networks, biomedical images, and chemical compounds. His research interests include Visual Analytics, Information Visualization, Algorithm Engineering, and Graph Drawing.

He received his PhD from the University of Dortmund, Germany, and worked in the field of network visualization for over ten years, with a focus on the requirements stemming from user- and application-defined constraints. He was one of the initiators and main developers for the Open Graph Drawing Framework OGDF, and was part of a research group on Graph Drawing at the research center caesar in Bonn, Germany, where he contributed to a start up company to commercialize graph drawing software. He initiated and administrates the Scaffold Hunter project, which supports drug development by providing a tool for the visual analysis of chemical compound databases.

Dr. Mark Read
University of Sydney, Australia

Title: In Situ Imaging & Mechanistic Simulation of Cellular Swarming

Abstract: Neutrophils are an essential component of the immune system, and are some of the earliest responders to inflammation. They hone in on sites of tissue damage in a rapid highly coordinated manner, covering great distances. This striking swarming behaviour can be observed and characterised in situ using two-photon laser microscopy, yet the the physiological signalling mechanisms responsible for it remain unclear.

In this talk we explore how agent-based simulations of neutrophil motility in an artificial tissue section can be used to evaluate potential signalling mechanisms. In situ microscopic tracking of swarming neutrophils yields a detailed and comprehensive statistical profile of cellular motility, and similar profiles are constructed for simulated neutrophils. By contrasting these profiles, we evaluate the plausibility of signalling mechanisms. We explore a major challenge in constructing mechanistic simulations, correctly simulating the environment, and demonstrate how tissue imaging can help us accurately model heterogeneous tissue qualities. Finally, we evaluate a particular signalling mechanism and provide an outlook on how these technologies, mechanistic simulation and in situ imaging, can together help explain biological phenomenon.

Speaker's Biography: Mark obtained his PhD in Computer Science from the University of York (UK) in 2011. His research focusses on applying computer science modelling and simulation techniques to better understanding biological systems. He created the world's first agent-based simulation of EAE, a mouse model of multiple sclerosis, with the aim of understanding the cellular mechanisms responsible for recovery in these mice. Whist at York, Mark engaged in simulation-aided design of swarm robotic algorithms. Since joining the Charles Perkins Centre in 2013 has expanded to modelling other systems. Mark is using mechanistic agent-based simulation to elucidate the signalling mechanisms responsible for the swarming behaviour observed in immune cells responding to inflammation, and is currently investigating how one's diet drives intestinal microbial communities, and how these in turn influence health.


Important Dates

Paper submission
20 February 2014
27 February 2014
Paper notification
25 March 2014
1 April 2014
Camera ready papers due
04 April 2014
11 April 2014
Paper submission
18 April 2014
Paper notification
2 May 2014
Camera ready papers due
9 May 2014
Conference Dates 10 - 13 June 2014