Webinar: SPARC Exploring the Pipeline of Image Segmentation to Scaffold Registration — PT 1

This two-part webinar series will demonstrate the SPARC MAP-Core image segmentation to scaffold registration pipeline. The MAP-Core team is developing interactive, modular, continually updated visualizations demonstrating nerve-organ anatomy and function based on SPARC-1 research data. These visualizations include finite element based 3D organ models (scaffolds). Registering microscopy image segmentation data to these organ scaffolds not only allows for comparison within and between experiments but also can be used to model nerve-organ biomechanical interactions.

In Part 1 of the series, MBF Bioscience will present a webinar demonstrating the microscopy image segmentation portion of this pipeline. MBF Bioscience provides SPARC researchers with automated image segmentation tools to generate FAIR microscopy image segmentation data that can be mapped to organ scaffolds generated by the Auckland Bioengineering Institute. The webinar will cover how to use this toolset and will outline the pipeline for creating segmentation data that can be registered to organ scaffolds.

0:00 - Introduction to the Webinar
2:02 - What is SPARC?
4:31 - SPARC MAP-Core and the Image Segmentation to Scaffold Registration Pipelines
6:47 - Benefits of Segmentation
7:36 - What is FAIR?
9:12 - Subcellular to Whole Organ Segmentation
10:00 - Case 1: Rat Heart
11:35 - Using Neurolucida 360
17:05 - Case 2: Mouse Stellate Ganglion
21:53 - Case 3: Mouse Colon
24:23 - Quantitative Analysis: Neurolucida Explorer
25:00 - File Format Specification
26:19 - Available Microscopy Segmentation Tools
27:45 - Wrapping up the Webinar
30:13 - Question
30:54 - Outro