International Workshop on
Visualization in Medicine and Life Sciences
- Current Challenges, State-of-the-art Approaches, and Future Directions -
July 19-21, 2006
Darren Platt, Laurence Livermore National Laboratory, USA
Darren Platt leads a department of 60 informatics staff at the Joint Genome Institute, a user facility for the Department of Energy which sequences 35 Gigabases of DNA each year. Darren completed his Ph.D.degree in Computer Science at Monash University, Australia, in the field of genome-wide restriction mapping. In 1995, he moved to the Sanger Center, Cambridge, where his postdoctoral research focused on image processing for both DNA sequencing and mapping applications on the Human Genome Project. He joined the computational biology group at Exelixis, a biotechnology company in 1997 and worked along all stages of the pharmaceutical pipeline. The team under his direction at Exelixis built a code base of 1.5 million lines serving several hundred internal and external customers. The JGI informatics department is responsible for transforming raw DNA sequence into annotated visualized genomes.
Seeing the Coming DNA Tsunami
DNA is the ultimate form of digital biology. In its raw form, the four letters are conveniently represented in just two bits of information. The DNA sequence itself has inherently no meaning to a human observer and the field of genomics has always relied on computers and visualization technology to make sense of even the most basic genetic features. We are standing on the brink of an enormous tide of genomic sequence, from novel organisms never seen before, environment "metagenomic" samples collected from the air, soil, extinct relatives and our own bodies and the "resequencing" of the genomes of hundreds and eventually billions of human beings. The bioinformatics field will have trouble absorbing this quantity of information. The sheer size is problematic with devices that can generate terabytes of information per day, and the field has traditionally relied on homegrown academic tools which do not scale well. I will talk about the traditional methods and frameworks for looking at genomic information from DNA sequence through to protein structure, talk about what works, what the current limitations are, and where the visualization community can help with this crisis.
Michael Scheuering, Siemens Medical Solutions, Forchheim, Germany
Michael Scheuering is with the CT Division, Physics and Applications, at Siemens Medical Solutions in Forchheim, Germany. He coordinates research and development of future Cardio CT applications from a conceptual stage to the market lauch (Application Manager Cardio). Michael Scheuring received his academic degrees in computer science from the Friedrich-Alexander University Erlangen-Nürnberg. His Ph.D. thesis was on the fusion of medical video images and tomographic volumes. He joined Siemens Medical Solutions in 2003 starting at the Competence Center for Image-Based Solutions (Erlangen). Since 2005 he is working on Computed Tomography (CT) - Physics and Applications.
Visualization and analysis of the human heart – current clinical status and future trends.
Cardio-vascular diseases are the most frequent cause of death in the western world. In consequence, there is a big variety of imaging techniques with increasing amount of data for the monitoring and detection of pathologies within the human body.
In order to assist physicians at work, professional post-processing applications have to provide the clinically appropriate visualization technique for the data, ranging from 2D slices to advanced 4D volume renderings in combination with intuitive user interfaces. However, the challenge for these analysis tools is to present the correct and clinically relevant information at the right time and place. Moreover, for information reduction purposes, the task is to reorganize the huge original scanner data in a way that only clinically important information is produced by post-processing or visualization techniques. This remaining data has then to be visualized in an efficient manner and must be clincially interpretable in a very limited examination time. In this talk, an overview of cardiac post-processing and visualization applications is given. In addition, the current status and the future challenges in this field are emphasized.