Abstract
We present an approach for the analysis of phenotypic diversity in morphology and internal composition of biological specimen by means of high resolution 3-D models of developing barley grains. Three-dimensional histological structures are resolved by reconstructing specimen from large stacks of serially sectioned material, which is a preliminary for the spatial assignment of key tissues in differentiation. By sampling and constructing models at different developmental time steps from multiple individuals, we address two aims in a computational phenomics context: i) Generation of averaging atlases as structural references for integration of functional data, and ii) building the basis for a mathematical model of grain morphogenesis. We have established an algorithmic pipeline for automated processing of large image stacks towards phenotypic 3-D models and data-integration, comprising registration, multi-label segmentation, and alignment of functional measurements. The described algorithms allow high-throughput reconstruction and tissue recognition of datasets comprising thousands of images. The usefulness of the approach is demonstrated by automated model generation, allowing volumetric measurements of tissue composition, three-dimensional analysis of diversity, and the integration of MALDI-IMS data by mutual information based registration, which is a significant contribution to a systematic analysis of differentiation and development.
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Bollenbeck, F., Kaspar, S., Mock, HP., Weier, D., Seiffert, U. (2009). Three-Dimensional Multimodality Modelling by Integration of High-Resolution Interindividual Atlases and Functional MALDI-IMS Data. In: Rajasekaran, S. (eds) Bioinformatics and Computational Biology. BICoB 2009. Lecture Notes in Computer Science(), vol 5462. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-00727-9_14
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DOI: https://doi.org/10.1007/978-3-642-00727-9_14
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