Generic human stomach scaffold

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

Data Collection: An anatomically-based 3D scaffold of the human stomach is created to map nerve ending pathways. The stomach scaffold is generated with a configurable central path defined from the fundus apex to the duodenum. A user can annotate the fundus, body, antrum, pylorus, and duodenum along the central path and use that to define the respective regions of the stomach. The cross axes of the central path provide control of the major and minor radii of the stomach in different sections. The human stomach scaffold is parameterized with data to represent the anatomy as accurate as possible.

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 stomach of subjects used in other studies.

Primary vs derivative data: The primary folder contains the mapping tool provenance data file needed to produce the generic human stomach scaffold. The mapping tool will be accessible from the release download page on the SPARC Portal. The primary folder also contains the MAP-Client workflow to reproduce the files. The derivative folder contains JSON files that are used to generate a visualization of the scaffold on the web portal as well as the vtk and stl version of the scaffold.

Code Availability: Scaffold Mapping Tools