Generic mouse colon scaffold

Study Purpose: The goal of this work is to create annotated generic mouse scaffolds for registration of segmented data obtained by experimental groups.

Data Collected: The generic scaffold is created based on the general description and average dimensions of mouse colons as measured by experimental groups who provide data to be registered on the scaffold.

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 an average colon of subjects used in other studies.

Primary vs derivative data: In the primary folder, nodal information and element 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 derivative folder contains json files which are 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/623 (scaffold source files)