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The authors use stack files of the autofluorescent insect exoskeleton (Drosophila male and female genitalia) to generate high-resolution models of parts of the outer surface of the fly. The study indicates that confocal laser scanning microscopy and 3D reconstruction are excellent techniques for visualizing small, complex, autofluorescent structures in Drosophila.
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Klaus A.V., Kulasekera V.L., Schawaroch V. Three-dimensional visualization of insect morphology using confocal laser scanning microscopy. J Microsc. 212:2003;107-121 The authors use stack files of the autofluorescent insect exoskeleton (Drosophila male and female genitalia) to generate high-resolution models of parts of the outer surface of the fly. The study indicates that confocal laser scanning microscopy and 3D reconstruction are excellent techniques for visualizing small, complex, autofluorescent structures in Drosophila.
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Wild-type and mutant thin filaments from 'myosinless' Drosophila flight muscles were serially sectioned. Digital models of filaments were able to resolve the exact spatial relationship between tropomyosin and actin in both the presence and absence of calcium, demonstrating that the complex formed by these structural molecules is indistinguishable from that in vertebrate striated muscle. A model of thin filaments from the Drosophila troponin mutant heldup(2) confirmed the previous hypothesis that this allele of troponin no longer reacts sterically in the absence of calcium.
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The authors introduce an automated procedure to morph gene-expression patterns into atlas models of early C. elegans embryos. This is one of the few studies where the ability of a program to 'recognize' cells in extremely simple embryos with fixed lineage (2-28 cells) is put to a test. Before expression can be mapped, the number and position of each cell must be determined. The accuracy of this software to stage these early embryos declined from 90.0% (2-cell), to 89.8% (4-cell) and down to 65.3% at the 8-cell stage. Embryos later than the 8-cell stage required the investigator to enter the exact stage and to identify the location of nuclei using a built-in interactive classification procedure. Both the technology used here as well as the outcome of the test are relevant for ongoing efforts to generate similar models in Drosophila.
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Minakuchi Y., Ito M., Kohara Y. SPI: A tool for incorporating gene expression data into a four-dimensional database of C. elegans embryogenesis. Bioinformatics. 20:2004;1097-1109 The authors introduce an automated procedure to morph gene-expression patterns into atlas models of early C. elegans embryos. This is one of the few studies where the ability of a program to 'recognize' cells in extremely simple embryos with fixed lineage (2-28 cells) is put to a test. Before expression can be mapped, the number and position of each cell must be determined. The accuracy of this software to stage these early embryos declined from 90.0% (2-cell), to 89.8% (4-cell) and down to 65.3% at the 8-cell stage. Embryos later than the 8-cell stage required the investigator to enter the exact stage and to identify the location of nuclei using a built-in interactive classification procedure. Both the technology used here as well as the outcome of the test are relevant for ongoing efforts to generate similar models in Drosophila.
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This paper introduces a web-based searchable database of Drosophila gene expression patterns. 2179 genes were analyzed by in situ hybridization to fixed Drosophila embryos. Of the genes assayed, 63.7% displayed dynamic expression patterns that were documented with 25,690 digital photomicrographs of individual embryos. The photomicrographs were annotated using controlled vocabularies for anatomical structures that are organized into a developmental hierarchy. The database provides a tool that allows for a systematic analysis of annotated patterns of gene expression.
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Tomancak P., Beaton A., Weiszmann R., Kwan E., Shu S.Q., Lewis S., Richards S., Ashburner M., Hartenstein V., Celniker S.E., et al. Systematic determination of patterns of gene expression during Drosophila embryogenesis. Genome Biol. 3:2003;1-18 This paper introduces a web-based searchable database of Drosophila gene expression patterns. 2179 genes were analyzed by in situ hybridization to fixed Drosophila embryos. Of the genes assayed, 63.7% displayed dynamic expression patterns that were documented with 25, 690 digital photomicrographs of individual embryos. The photomicrographs were annotated using controlled vocabularies for anatomical structures that are organized into a developmental hierarchy. The database provides a tool that allows for a systematic analysis of annotated patterns of gene expression.
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Tomancak, P.1
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Myasnikova E., Samsonova A., Kozlov K., Samsonova M., Reinitz R. Registration of the expression patterns of Drosophila segmentation genes by two independent methods. Bioinformatics. 17:2001;3-12
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Poustelnikova, E.1
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