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Consistent Visualization of Multiple Rigid Domain Decompositions of Proteins

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Bioinformatics Research and Applications (ISBRA 2016)

Part of the book series: Lecture Notes in Computer Science ((LNBI,volume 9683))

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Abstract

We describe an efficient method to facilitate the visual comparison of cluster decompositions obtained from multiple variations of a protein structure, as well as the results of using different computational and experimental methods for obtaining such decompositions. Implemented as a web server application, this tool is useful for gaining information about protein folding cores, the effect of mutations on a protein’s stability, and for validation and better understanding of rigidity analysis.

E. Flynn—Research conducted while an undergraduate student at Smith College, with support from a Clare Boothe Luce Scholarship, NSF 4CBC Biomathematics Fellowship (through NSF UBM-1129194) and Goldwater Scholarship.

I. Streinu—Research supported by NSF CCF-1319366, NSF UBM-1129194 and NIH/NIGMS 1R01GM109456.

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Notes

  1. 1.

    The converse problem, where every \(C_j'\) in \(R'\) is a superset of at least one cluster \(C_i\) in R is not addressed because it does not correspond to any of the biological applications we are interested in and is only a slight variation of the original problem.

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Author information

Authors and Affiliations

  1. Biomedical Informatics Program, Stanford University, Santa Clara, USA

    Emily Flynn

  2. Department of Computer Science, Smith College, Northampton, USA

    Emily Flynn & Ileana Streinu

  3. School of Computer Science, University of Massachusetts Amherst, Amherst, USA

    Ileana Streinu

Authors
  1. Emily Flynn
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  2. Ileana Streinu
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Corresponding author

Correspondence to Ileana Streinu .

Editor information

Editors and Affiliations

  1. Dept. of Computer Science, Georgia State University, Atlanta, Georgia, USA

    Anu Bourgeois

  2. Centre for Disease Control & Prevention, Atlanta, Georgia, USA

    Pavel Skums

  3. Department of Computer Science, Hong Kong Baptist University, Kowloon Tong, Hong Kong

    Xiang Wan

  4. Georgia State University, Atlanta, Georgia, USA

    Alex Zelikovsky

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© 2016 Springer International Publishing Switzerland

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Flynn, E., Streinu, I. (2016). Consistent Visualization of Multiple Rigid Domain Decompositions of Proteins. In: Bourgeois, A., Skums, P., Wan, X., Zelikovsky, A. (eds) Bioinformatics Research and Applications. ISBRA 2016. Lecture Notes in Computer Science(), vol 9683. Springer, Cham. https://doi.org/10.1007/978-3-319-38782-6_13

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  • DOI: https://doi.org/10.1007/978-3-319-38782-6_13

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-319-38781-9

  • Online ISBN: 978-3-319-38782-6

  • eBook Packages: Computer ScienceComputer Science (R0)

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