Mathias Ganter

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MetaNetX.org is a website for accessing, analysing and manipulating genome-scale metabolic networks (GSMs) as well as biochemical pathways. It consistently integrates data from various public resources and makes the data accessible in a standardized format using a common namespace. Currently, it provides access to hundreds of GSMs and pathways that can be(More)
The procedure for creating a patient-specific virtual tissue model with finite element (FE) based haptic (force) feedback varies substantially from that which is required for generating a typical volumetric model. In addition to extracting geometrical and texture map data to provide visual realism, it is necessary to obtain information for supporting a FE(More)
Given the geometric complexity of anatomical structures, realistic real-time deformation of graphical reconstructions is prohibitively computationally intensive. Instead, real-time deformation of virtual anatomy is roughly approximated through simpler methodologies. Since the graphical interpolations and simple spring models commonly used in these(More)
At the University of Washington, we have been developing a suturing simulator using novel finite element model techniques which allow real-time haptic feedback. The issues involved in measuring validity in a suturing model have not been examined in a systematic way. Very few studies exist on the surgical factors that lead to good sutures. We have examined(More)
Surgical simulation is increasingly being considered for training, testing, and possibly credentialing in medicine and surgery. At the University of Washington we have been developing a virtual reality (VR) suturing simulator. In the course of development it must be realized that expensive new technologies should bear the burden of proof of their(More)
In the 20th century, virtual reality has predominantly played a role in training pilots and in the entertainment industry. Despite much publicity, virtual reality did not live up to its perceived potential. During the past decade, it has also been applied for medical uses, particularly as training simulators, for minimally invasive surgery. Because of(More)
Identifying suitable patterns in complex biological interaction networks helps understanding network functions and allows for predictions at the pattern level: by recognizing a known pattern, one can assign its previously established function. However, current approaches fail for previously unseen patterns, when patterns overlap and when they are embedded(More)
Understanding cellular function requires accurate, comprehensive representations of metabolism. Genome-scale, constraint-based metabolic models (GSMs) provide such representations, but their usability is often hampered by inconsistencies at various levels, in particular for concurrent models. COMMGEN, our tool for COnsensus Metabolic Model GENeration,(More)
A new sample holder that allows combined microtomy for atomic force microscopy (AFM) and transmission electron microscopy (TEM) is described. The main feature of this sample holder is a small central part holding the sample. This central part fits into the head of an atomic force microscope. AFM measurements can be performed with a sample mounted in this(More)
The presented research focuses on work done at the University of Washington on process development for the training of nitinol shape memory alloy wire using Three Dimensional Printing (3DP). Fixtures are created using the commercial stainless steel printing system produced by Ex One. Superelastic nitinol wire is set by restraining the wire in a fixture and(More)