larvalign: Aligning Gene Expression Patterns from the Larval Brain of Drosophila melanogaster |
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| Authors: | Sascha E. A. Muenzing Martin Strauch James W. Truman Katja Bühler Andreas S. Thum Dorit Merhof |
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| Affiliation: | 1.Institute of Imaging & Computer Vision,RWTH Aachen University,Aachen,Germany;2.Forschungszentrum Jülich,Institute of Neuroscience and Medicine,Jülich,Germany;3.Janelia Research Campus,Howard Hughes Medical Institute,Ashburn,USA;4.Friday Harbor Laboratories,University of Washington,Friday Harbor,USA;5.VRVis Zentrum für Virtual Reality und Visualisierung Forschungs-GmbH,Vienna,Austria;6.Department of Biology,University of Konstanz,Constance,Germany;7.Zukunftskolleg,University of Konstanz,Constance,Germany;8.Department of Genetics,University of Leipzig,Leipzig,Germany |
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| Abstract: | 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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