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Mathematical characterization of three-dimensional gene expression patterns.

L da F Costa·M S Barbosa·E T M Manoel·J Streicher·G B Müller
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Abstract

MOTIVATION: The importance of a systematic methodology for the mathematical characterization of three-dimensional gene expression patterns in embryonic development. METHODS: By combining lacunarity and multiscale fractal dimension analyses with computer-based methods of three-dimensional reconstruction, it becomes possible to extract new information from in situ hybridization studies. Lacunarity and fractality are appropriate measures for the cloud-like gene activation signals in embryonic tissues. The newly introduced multiscale method provides a natural extension of the fractal dimension concept, being capable of characterizing the fractality of geometrical patterns in terms of spatial scale. This tool can be systematically applied to three-dimensional patterns of gene expression. RESULTS: Applications are illustrated using the three-dimensional expression patterns of the myogenic marker gene Myf5 in a series of differentiating somites of a mouse embryo.

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AnimalsCulture TechniquesDNA-Binding ProteinsEmbryo, MammalianFractalsGene Expression ProfilingGene Expression RegulationImage Interpretation, Computer-AssistedImaging, Three-DimensionalIn Situ Hybridization, FluorescenceMiceMicroscopy, FluorescenceMuscle ProteinsMyogenic Regulatory Factor 5Numerical Analysis, Computer-AssistedPattern Recognition, AutomatedTissue DistributionTrans-ActivatorsTranscriptional ActivationComparative StudyEvaluation StudyJournal ArticleResearch Support, Non-U.S. Gov'tValidation Study

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L da F Costa, M S Barbosa, E T M Manoel, J Streicher, G B Müller. 2004-02-26. Mathematical characterization of three-dimensional gene expression patterns.. https://doi.org/10.1093/bioinformatics%2Fbth135

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