Transcription regulatory region analysis using signal detection and fuzzy clustering

Bioinformatics. 1998;14(3):244-51. doi: 10.1093/bioinformatics/14.3.244.

Abstract

Motivation: Presently available programs for the recognition of potential transcription factor binding sites in genomic sequences generally yield a huge amount of output. These output lists have to be filtered to obtain biologically significant elements, which is highly laborious work to be done manually.

Results: We developed a strategy for systematic verification and improvement of the underlying profiles, and for their contextual analysis by a fuzzy clustering approach using non-redundant libraries of search profiles as a prerequisite.

Availability: The tools mentioned in the paper are available upon request.

Contact: ewi@gbf.de

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Binding Sites / genetics
  • Cluster Analysis
  • Computational Biology / methods
  • Databases as Topic
  • False Positive Reactions
  • Fuzzy Logic*
  • Models, Genetic
  • Protein Binding / genetics
  • Regulatory Sequences, Nucleic Acid / genetics*
  • Sequence Analysis, DNA / methods*
  • Signal Processing, Computer-Assisted*
  • Software Validation
  • Transcription Factors / genetics
  • Transcription Factors / metabolism
  • Transcription, Genetic*

Substances

  • Transcription Factors