Skip to main content
Log in

Frame potential minimization for clustering short time series

  • Regular Article
  • Published:
Advances in Data Analysis and Classification Aims and scope Submit manuscript

Abstract

The short time series expression miner by Ernst et al. (Bioinformatics 21:i159–i168, 2005) assigns time series data to the closest of suitably selected prototypes followed by the selection of significant clusters and eventual grouping. We prove that the proposed dissimilarity measure 1 − ρ, with correlation coefficient ρ, can be interpreted as the distance of projected data onto the (d − 1)-dimensional unit sphere \({\mathcal{S}^{d-1}}\). The choice of prototypes is closely related to classical problems in optimization theory. Moreover, we propose a new functional, which has a data-driven component and connects the choice of prototypes to the theory of finite unit norm tight frames by Benedetto and Fickus (Adv Comput Math 18:357–385, 2003).

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Similar content being viewed by others

References

  • Batchelor BG, Wilkins BR (1969) Method for location of clusters of patterns to initialise a learning machine. Electron Lett 5(20): 481–483

    Article  Google Scholar 

  • Belkin M, Niyogi P (2003) Laplacian eigenmaps for dimensionality reduction and data representation. Neurol Comput 15(6): 1373–1396

    Article  MATH  Google Scholar 

  • Benedetto JJ, Fickus M (2003) Finite normalized tight frames. Adv Comput Math 18: 357–385

    Article  MathSciNet  MATH  Google Scholar 

  • Benedetto JJ, Czaja W, Ehler M (2010) Frame potential classification algorithm for retinal data. In: Herold KE, Bentley WE, Vossoughi J (eds) IFMBE proc series 32. Springer Intern Fed for Medical & Biological Engineering: 26th Southern Biomedical Engineering Conference, College Park, Maryland, USA, pp 496–499

  • Conway JH, Sloane NJA (1993) Sphere packings, lattices and groups. Springer, New York

    MATH  Google Scholar 

  • Czaja W, Ehler M (2011) Schroedinger eigenmaps for the analysis of bio-medical data. arXiv:1102.4086v1

  • Daubechies I (1992) Ten lectures on wavelets. SIAM, Philadelphia

    Book  MATH  Google Scholar 

  • Duffin RJ, Schaeffer AC (1952) A class of non-harmonic fourier series. Trans Am Math Soc 72: 341–366

    Article  MathSciNet  MATH  Google Scholar 

  • Ehler M (2011) Random tight frames. J Fourier Anal Appl (to appear). arXiv:1102.4080v2

  • Ehler M, Galanis J (2011) Frame theory in directional statistics. Stat Probab Lett 81: 1046–1051

    Article  MATH  Google Scholar 

  • Ehler M, Okoudjou KA (2011) Minimization of the probabilistic p-frame potential. arXiv:1101.0140v2

  • Ehler M, Rajapakse VN, Zeeberg B, Brooks B, Brown J, Czaja W, Bonner RF (2011) Nonlinear gene cluster analysis with labeling for microarray gene expression data in organ development. BMC Proc 5(Suppl 2): S3

    Article  Google Scholar 

  • Ernst J, Nau GJ, Bar-Joseph Z (2005) Clustering short time series gene expression data. Bioinformatics 21: i159–i168

    Article  Google Scholar 

  • Gasch AP, Spellman PT, Kao CM, Carmel-Harel O, Eisen MB, Storz G, Botstein D, Brown PO (2000) Genomic expression programs in the response of yeast cells to environmental changes. Mol Biol Cell 11: 4241–4257

    Google Scholar 

  • Goyal V, Vetterli M, Thao NT (1998) Quantized overcomplete expansions in \({\mathbb{R}^n}\) : analysis, synthesis and algorithms. IEEE Trans Inf Theory 44: 16–31

    Article  MathSciNet  MATH  Google Scholar 

  • Hastie T, Tibshirani R, Friedman J (2001) The elements of statistical learning. Springer, New York

    MATH  Google Scholar 

  • Kim J, Kim JH (2007) Difference-based clustering of short time-course microarray data with replicates. BMC Bioinformatics 8: 253–264

    Article  Google Scholar 

  • Kovačević J, Chebira A (2007a) Life beyond bases: the advent of frames: part 1. IEEE SP Mag 24(4): 86–104

    Article  Google Scholar 

  • Kovačević J, Chebira A (2007b) Life beyond bases: the advent of frames: part 2. IEEE SP Mag. 24(5): 115–125

    Article  Google Scholar 

  • Qu Y, Bao-Ling A, Thornquist M, Potter JD, Thompson ML, Yasui Y, Davis J, Schellhammer PF, Cazares L, Clements MA, Feng Z (2003) Data reduction using a discrete wavelet transform in discriminant analysis of very high dimensionality data. Biometrics 59: 143–151

    Article  MathSciNet  MATH  Google Scholar 

  • Saff E, Kuijlaars ABJ (1997) Distributing many points on a sphere. Math Intell 19: 5–11

    Article  MathSciNet  MATH  Google Scholar 

  • Tammes PML (1930) On the origin of number and arrangement of the places of exit on pollen grains. PhD thesis, University of Groningen

  • Thomson JJ (1904) On the structure of the atom: an investigation of the stability and periods of oscillation of a number of corpuscles arranged at equal intervals around the circumference of a circle; with application of the results to the theory of atomic structure. Philos Mag Ser 6:7(39):237–265

  • Vlachos M, Lin J, Keogh E, Gunopulos D (2003) A wavelet-based anytime algorithm for k-means clustering of time series. In: Proceedings workshop on clustering high dimensionality data and its applications, pp 23–30

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Tobias Springer.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Springer, T., Ickstadt, K. & Stöckler, J. Frame potential minimization for clustering short time series. Adv Data Anal Classif 5, 341–355 (2011). https://doi.org/10.1007/s11634-011-0097-4

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11634-011-0097-4

Keywords

Mathematics Subject Classification (2000)

Navigation