Immersive environment for creating, proofreading, and exploring skeletons of nanometric scale neural structures
Type
Conference PaperAuthors
Boges, DaniyaCali, Corrado
Magistretti, Pierre J.

Hadwiger, Markus

Sicat, Ronell Barrera

Agus, Marco
KAUST Department
Biological and Environmental Sciences and Engineering (BESE) DivisionBioscience Program
Computer Science Program
Visual Computing Center (VCC)
Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
Date
2019-01-01Permanent link to this record
http://hdl.handle.net/10754/663943
Metadata
Show full item recordAbstract
We present a novel immersive environment for the exploratory analysis of nanoscale cellular reconstructions of rodent brain samples acquired through electron microscopy. The system is focused on medial axis representations (skeletons) of branched and tubular structures of brain cells, and it is specifically designed for: i) effective semi-automatic creation of skeletons from surface-based representations of cells and structures, ii) fast proofreading, i.e., correcting and editing of semi-automatically constructed skeleton representations, and iii) useful exploration, i.e., measuring, comparing, and analyzing geometric features related to cellular structures based on medial axis representations. The application runs in a standard PC-tethered virtual reality (VR) setup with a head mounted display (HMD), controllers, and tracking sensors. The system is currently used by neuroscientists for performing morphology studies on sparse reconstructions of glial cells and neurons extracted from a sample of the somatosensory cortex of a juvenile rat.Citation
Boges, D., Calì, C., Magistretti, P. J., Hadwiger, M., Sicat, R., & Agus, M. (2019). Immersive Environment for Creating, Proofreading, and Exploring Skeletons of Nanometric Scale Neural Structures. <i>Smart Tools and Apps for Graphics - Eurographics Italian Chapter Conference</i>. https://doi.org/10.2312/STAG.20191360Sponsors
This work is supported by KAUST King Abdullah University of Science and Technology KAUST-EPFL Alliance for Integrative Modeling of Brain Energy Metabolism https://www.kaust.edu.sa/en under KAUST CRG6 Grant No. 2313.Publisher
Eurographics AssociationConference/Event name
2019 Italian Chapter Conference - Smart Tools and Apps in Computer Graphics, STAG 2019ISBN
9783038681007Additional Links
https://diglib.eg.org/handle/10.2312/stag20191360ae974a485f413a2113503eed53cd6c53
10.2312/stag.20191360