Evaluating Viewpoint Entropy for Ribbon Representation of Protein Structure

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dc.contributor.authorHeinrich, Julianen_US
dc.contributor.authorVuong, Jennyen_US
dc.contributor.authorHammang, Christopher J.en_US
dc.contributor.authorWu, Andrewen_US
dc.contributor.authorRittenbruch, Markusen_US
dc.contributor.authorHogan, Jimen_US
dc.contributor.authorBrereton, Margoten_US
dc.contributor.authorO'Donoghue, Sean I.en_US
dc.contributor.editorKwan-Liu Ma and Giuseppe Santucci and Jarke van Wijken_US
dc.date.accessioned2016-06-09T09:32:41Z
dc.date.available2016-06-09T09:32:41Z
dc.date.issued2016en_US
dc.description.abstractWhile many measures of viewpoint goodness have been proposed in computer graphics, none have been evaluated for ribbon representations of protein secondary structure. To fill this gap, we conducted a user study on Amazon's Mechanical Turk platform, collecting human viewpoint preferences from 65 participants for 4 representative superfamilies of protein domains. In particular, we evaluated viewpoint entropy, which was previously shown to be a good predictor for human viewpoint preference of other, mostly non-abstract objects. In a second study, we asked 7 experts in molecular biology to find the best viewpoint of the same protein domains and compared their choices with viewpoint entropy. Our results indicate that viewpoint entropy overall is a significant predictor of human viewpoint preference for ribbon representations of protein secondary structure. However, the accuracy depends on the type and composition of the structure: while most participants agree on good viewpoints for structures with mainly beta sheets, viewpoint preference varies considerably for complex arrangements of alpha helices. Finally, experts tend to choose viewpoints of both low and high viewpoint entropy to emphasize different aspects of the respective structure.en_US
dc.description.number3en_US
dc.description.sectionheadersBiological Data Visualizationen_US
dc.description.seriesinformationComputer Graphics Forumen_US
dc.description.volume35en_US
dc.identifier.doi10.1111/cgf.12894en_US
dc.identifier.issn1467-8659en_US
dc.identifier.pages181-190en_US
dc.identifier.urihttps://doi.org/10.1111/cgf.12894en_US
dc.identifier.urihttps://diglib.eg.org:443/handle/10
dc.publisherThe Eurographics Association and John Wiley & Sons Ltd.en_US
dc.titleEvaluating Viewpoint Entropy for Ribbon Representation of Protein Structureen_US
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