On mining micro-array data by Order-Preserving Submatrix

Int J Bioinform Res Appl. 2007;3(1):42-64. doi: 10.1504/IJBRA.2007.011834.

Abstract

We study the problem of pattern-based subspace clustering which is clustering by pattern similarity finds objects that exhibit a coherent pattern of rises and falls in subspaces. Applications of pattern-based subspace clustering include DNA micro-array data analysis. Our goal is to devise pattern-based clustering methods that are capable of: discovering useful patterns of various shapes, and discovering all significant patterns. Our approach is to extend the idea of Order-Preserving Submatrix (OPSM). We devise a novel algorithm for mining OPSM, show that OPSM can be generalised to cover most existing pattern-based clustering models and propose a number of extensions to the original OPSM model.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Artificial Intelligence
  • Cluster Analysis
  • Computational Biology / methods*
  • DNA / chemistry
  • Data Interpretation, Statistical
  • Gene Expression Profiling / methods*
  • Gene Expression Regulation*
  • Image Interpretation, Computer-Assisted
  • Information Storage and Retrieval
  • Models, Genetic
  • Models, Statistical
  • Oligonucleotide Array Sequence Analysis / methods*
  • Pattern Recognition, Automated

Substances

  • DNA