Waveform processing for protein multi-alignment by mapping location, structure and property function attributes

Brian O'Donnell, Alexander Maurer, Antonia Papandreou-Suppappola

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Scopus citations

Abstract

We propose a pairwise protein structure alignment approach based on a joint similarity measure of multiple protein attributes. We map information on a protein's sequence location, structure and characteristic properties onto a highly-localized three-dimensional Gaussian waveform. By allowing the waveform to undergo unique transformations in the time-frequency plane, we allocate distinct parameters to represent the different attributes. Protein matching by expanding the mapped waveforms using appropriately designed basis waveform functions provides a similarity measure to encompass the multiple attributes. Simulations using data from a database demonstrate the performance of the joint alignment approach to infer relationships between proteins.

Original languageEnglish (US)
Title of host publicationConference Record of the 47th Asilomar Conference on Signals, Systems and Computers
PublisherIEEE Computer Society
Pages248-252
Number of pages5
ISBN (Print)9781479923908
DOIs
StatePublished - Jan 1 2013
Event2013 47th Asilomar Conference on Signals, Systems and Computers - Pacific Grove, CA, United States
Duration: Nov 3 2013Nov 6 2013

Publication series

NameConference Record - Asilomar Conference on Signals, Systems and Computers
ISSN (Print)1058-6393

Other

Other2013 47th Asilomar Conference on Signals, Systems and Computers
CountryUnited States
CityPacific Grove, CA
Period11/3/1311/6/13

ASJC Scopus subject areas

  • Signal Processing
  • Computer Networks and Communications

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    O'Donnell, B., Maurer, A., & Papandreou-Suppappola, A. (2013). Waveform processing for protein multi-alignment by mapping location, structure and property function attributes. In Conference Record of the 47th Asilomar Conference on Signals, Systems and Computers (pp. 248-252). [6810270] (Conference Record - Asilomar Conference on Signals, Systems and Computers). IEEE Computer Society. https://doi.org/10.1109/ACSSC.2013.6810270