Model building and intelligent acquisition with application to protein subcellular location classification

C. Jackson, E. Glory-Afshar, R. F. Murphy, Jelena Kovacevic

Research output: Contribution to journalArticle

Abstract

Motivation: We present a framework and algorithms to intelligently acquire movies of protein subcellular location patterns by learning their models as they are being acquired, and simultaneously determining how many cells to acquire as well as how many frames to acquire per cell. This is motivated by the desire to minimize acquisition time and photobleaching, given the need to build such models for all proteins, in all cell types, under all conditions. Our key innovation is to build models during acquisition rather than as a post-processing step, thus allowing us to intelligently and automatically adapt the acquisition process given the model acquired. Results: We validate our framework on protein subcellular location classification, and show that the combination of model building and intelligent acquisition results in time and storage savings without loss of classification accuracy, or alternatively, higher classification accuracy for the same total acquisition time.

Original languageEnglish (US)
Article numberbtr286
Pages (from-to)1854-1859
Number of pages6
JournalBioinformatics
Volume27
Issue number13
DOIs
StatePublished - Jul 1 2011

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Proteins
Protein
Photobleaching
Motion Pictures
Cell
Learning
Post-processing
Model
Innovation
Acquisition
Minimise
Processing
Framework

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Computational Theory and Mathematics
  • Computer Science Applications
  • Computational Mathematics
  • Statistics and Probability
  • Medicine(all)

Cite this

Model building and intelligent acquisition with application to protein subcellular location classification. / Jackson, C.; Glory-Afshar, E.; Murphy, R. F.; Kovacevic, Jelena.

In: Bioinformatics, Vol. 27, No. 13, btr286, 01.07.2011, p. 1854-1859.

Research output: Contribution to journalArticle

Jackson, C. ; Glory-Afshar, E. ; Murphy, R. F. ; Kovacevic, Jelena. / Model building and intelligent acquisition with application to protein subcellular location classification. In: Bioinformatics. 2011 ; Vol. 27, No. 13. pp. 1854-1859.
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