Generic rat brainstem scaffold

Shelley Fong
Arti Sukasem
Richard Christie
Peter Hunter

Annotated rat brainstem scaffold available for registration of segmented neural anatomical-functional mapping of neural circuits.

Updated on June 29, 2021 (Version 1)

Corresponding Contributor:

Arti Sukasem
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Dataset Overview

Study Purpose: The goal of this work is to create an annotated generic rat brainstem scaffold for the registration of segmented data obtained by experimental groups.

Data Collected: The generic scaffold is initially created based on the general description of rat brainstem from literature (DOI: 10.13099/VIP91106-04-0).

Primary Conclusion: None stated

Curator’s Notes:

Experimental design: Not applicable.

Completeness: The study is ongoing and potentially will link to other datasets where the data is used for mapping onto the scaffold.

Subjects & Samples: The generic scaffold is not subject/sample specific but represents a generic rat brainstem.

Primary vs. derivative data: In the primary folder, nodal information and elements connectivity of the scaffold are formatted as an exf file. Using the commands in the cmgui file, the scaffold can be visualized using open source software CMGUI. The JSON file contains the parameter settings to reproduce the scaffold in the ScaffoldMaker software. The derivative folder contains the legacy vtk format file, which can be used to visualize the scaffold in many different visualization software, e.g., ParaView. The Scaffold folder in the derivative folder contains the JSON files used to generate a visualization of the scaffold on the web portal.

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About this dataset

Publishing history

June 29, 2021
Originally Published
June 29, 2021 (Version 1)
Last Updated

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