Generic human gastrointestinal tract scaffold

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

Data Collection: The generic scaffold is created based on data obtained from Anatomography. The gastrointestinal tract scaffold is defined by a continuous network layout that describes the path of the gastrointestinal tract. The esophagus, stomach, small intestine, cecum and colon scaffolds are sculpted from the segmented data. The respective scaffolds are aligned and merged together to form a continuous mesh.

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 gastrointestinal tract of subjects used in other studies.

Primary vs derivative data: The primary folder contains the mapping tool provenance data file describing the software environment in place when this dataset was created.  The primary folder also contains the settings files which in conjunction with the software information in the provenance file, will reproduce the output files stored in the derivative folder. The derivative folder contains JSON files that are used to generate a webGL visualization of the scaffold on the SPARC portal, as well as the VTK and STL formats of the scaffold.

Code Availability: Scaffold Mapping Tools