Visual Analysis and Comparison of Multiple Sequence Alignments (Unknown language)

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Multiple Sequence Alignments (MSA) of a set of DNA, RNA or protein sequences form the fundamental basis for various biological applications such as evolutionary heritage and protein structure prediction. The quality of an MSA is crucial in order to provide useful and correct results. The analysis of MSAs is, however, still a challenging task since constructing MSAs is an NP hard problem and thus the optimal MSA is usually unknown. Additionally, MSA quality analysis is often completely ignored, especially by non-expert users, due to the lack of tools for the visual comparison and the intuitive quality assessment of alignments. In this paper, we present an interactive visual approach to simultaneously assess the quality of multiple alternative MSAs of the same set of sequences. We provide a direct assessment of the alignment quality using different highlighting techniques in combination with automatic quality measures and editing capabilities. An in-depth evaluation of our approach highlights its benefits for MSA quality assessment.

Table of contents conference proceedings

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1
Unfolding and Interactive Exploration of Protein Tunnels and their Dynamics
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11
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21
Illustrative Transitions in Molecular Visualization via Forward and Inverse Abstraction Transform
Sorger, Johannes / Mindek, Peter / Klein, Tobias / Johnson, Graham / Viola, Ivan | 2016
31
Visual Analysis and Comparison of Multiple Sequence Alignments
Hess, Martin / Jente, Daniel / Wiemeyer, Josef / Hamacher, Kay / Goesele, Michael | 2016
41
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47
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53
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59
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69
A Framework for Fast Initial Exploration of PC-MRI Cardiac Flow
Broos, Arjan J. M. / Hoon, Niels H. L. C. de / Koning, Patrick J. H. de / Geest, Rob J. van der / Vilanova, Anna / Jalba, Andrei C. | 2016
79
Coherence Maps for Blood Flow Exploration
Englund, Rickard / Ropinski, Timo / Hotz, Ingrid | 2016
89
Spatio-temporal Visualization of Regional Myocardial Velocities
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99
Illustrative PET/CT Visualisation of SIRT-Treated Lung Metastases
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105
A Feasibility Study on Automated Protein Aggregate Characterization Utilizing a Hybrid Classification Model
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111
PATHONE: From one Thousand Patients to one Cell
Corvò, Alberto / Westenberg, Michel A. / Driel, Marc A. van / Wijk, Jarke J.van | 2016
117
Recent Advances in MRI and Ultrasound Perfusion Imaging
Jirík, Radovan | 2016
123
Semi-Immersive 3D Sketching of Vascular Structures for Medical Education
Saalfeld, Patrick / Stojnic, Aleksandar / Preim, Bernhard / Oeltze-Jafra, Steffen | 2016
133
Sline: Seamless Line Illustration for Interactive Biomedical Visualization
Lichtenberg, Nils / Smit, Noeska / Hansen, Christian / Lawonn, Kai | 2016
143
Aortic Dissection Maps: Comprehensive Visualization of Aortic Dissections for Risk Assessment
Mistelbauer, Gabriel / Schmidt, Johanna / Sailer, Anna-Margaretha / Bäumler, Kathrin / Walters, Shannon / Fleischmann, Dominik | 2016
153
How to Evaluate Medical Visualizations on the Example of 3D Aneurysm Surfaces
Glaßer, Sylvia / Saalfeld, Patrick / Berg, Philipp / Merten, Nico / Preim, Bernhard | 2016
163
Visualization-Guided Evaluation of Simulated Minimally Invasive Cancer Treatment
Voglreiter, Philip / Hofmann, Michael / Ebner, Christoph / Sequeiros, Roberto Blanco / Portugaller, Horst Rupert / Fütterer, Jurgen / Moche, Michael / Steinberger, Markus / Schmalstieg, Dieter | 2016
173
Monte-Carlo Ray-Tracing for Realistic Interactive Ultrasound Simulation
Mattausch, Oliver / Goksel, Orcun | 2016
183
Graxels: Information Rich Primitives for the Visualization of Time-Dependent Spatial Data
Stoppel, Sergej / Hodneland, Erlend / Hauser, Helwig / Bruckner, Stefan | 2016
193
Visual Analytics for the Exploration and Assessment of Segmentation Errors
Raidou, Renata G. / Marcelis, Freek J. J. / Breeuwer, Marcel / Gröller, Eduard / Vilanova, Anna / Wetering, Huub M. M. van de | 2016