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

Muenzing SEA, Strauch M, Truman JW, Buehler K, Thum AS, Merhof D (2018)

Publication Type: Journal article

Publication year: 2018

Journal

Neuroinformatics Humana Press

Book Volume: 16

Pages Range: 65-80

Journal Issue: 1

DOI: 10.1007/s12021-017-9349-6

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.

Involved external institutions

Rheinisch-Westfälische Technische Hochschule (RWTH) Aachen DE Germany (DE) Howard Hughes Medical Institute US United States (USA) (US) VRVis Zentrum für Virtual Reality und Visualisierung Forschungs-GmbH AT Austria (AT) Universität Konstanz DE Germany (DE)

How to cite

APA:

Muenzing, S.E.A., Strauch, M., Truman, J.W., Buehler, K., Thum, A.S., & Merhof, D. (2018). larvalign: Aligning Gene Expression Patterns from the Larval Brain of Drosophila melanogaster. Neuroinformatics, 16(1), 65-80. https://doi.org/10.1007/s12021-017-9349-6

MLA:

Muenzing, Sascha E. A., et al. "larvalign: Aligning Gene Expression Patterns from the Larval Brain of Drosophila melanogaster." Neuroinformatics 16.1 (2018): 65-80.

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