larvalign: Aligning Gene Expression Patterns from the Larval Brain of Drosophila melanogaster

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2018
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Muenzing, Sascha E. A.
Truman, James W.
Bühler, Katja
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Neuroinformatics. 2018, 16(1), pp. 65-80. ISSN 1539-2791. eISSN 1559-0089. Available under: doi: 10.1007/s12021-017-9349-6
Zusammenfassung

The larval brain of the fruit fly Drosophila melanogaster is a small, tractable model system for neuroscience. Genes for fluorescent marker proteins can be expressed in defined, spatially restricted neuron populations. Here, we introduce the methods for 1) generating a standard template of the larval central nervous system (CNS), 2) spatial mapping of expression patterns from different larvae into a reference space defined by the standard template. We provide a manually annotated gold standard that serves for evaluation of the registration framework involved in template generation and mapping. A method for registration quality assessment enables the automatic detection of registration errors, and a semi-automatic registration method allows one to correct registrations, which is a prerequisite for a high-quality, curated database of expression patterns. All computational methods are available within the larvalign software package: https://github.com/larvalign/larvalign/releases/tag/v1.0.

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570 Biowissenschaften, Biologie
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Drosophilamelanogaster, Larval brain, Standard brain, Image registration, elastix, Gene expression patterns
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ISO 690MUENZING, Sascha E. A., Martin STRAUCH, James W. TRUMAN, Katja BÜHLER, Andreas THUM, Dorit MERHOF, 2018. larvalign: Aligning Gene Expression Patterns from the Larval Brain of Drosophila melanogaster. In: Neuroinformatics. 2018, 16(1), pp. 65-80. ISSN 1539-2791. eISSN 1559-0089. Available under: doi: 10.1007/s12021-017-9349-6
BibTex
@article{Muenzing2018-01larva-41543,
  year={2018},
  doi={10.1007/s12021-017-9349-6},
  title={larvalign: Aligning Gene Expression Patterns from the Larval Brain of Drosophila melanogaster},
  number={1},
  volume={16},
  issn={1539-2791},
  journal={Neuroinformatics},
  pages={65--80},
  author={Muenzing, Sascha E. A. and Strauch, Martin and Truman, James W. and Bühler, Katja and Thum, Andreas and Merhof, Dorit}
}
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