Generic rat bladder scaffold

Zohreh Ekhlasi
,
Richard Christie
,
Peter Hunter

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

Updated on June 2, 2021 (Version 2)

Corresponding Contributor:

Zohreh Ekhlasi
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Dataset Overview

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

Data Collected: The generic scaffold is initially created based on the general description of rat bladders from literature. The scaffold was later improved based on segmented image data from the experimental group who provided their data for registration of neural data.

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 bladder.

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.

Code availability: https://github.com/ABI-Software/scaffoldmaker (ABI-Software/scaffoldmaker Anatomical scaffold generator using OpenCMISS), https://models.physiomeproject.org/e/67c (scaffold source files).

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About this dataset

Publishing history

January 25, 2021
Originally Published
June 2, 2021 (Version 2)
Last Updated

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