Literature DB >> 24808059

Exploring the connectome: petascale volume visualization of microscopy data streams.

Johanna Beyer, Markus Hadwiger, Ali Al-Awami, Won-Ki Jeong, Narayanan Kasthuri, Jeff W Lichtman, Hanspeter Pfister.   

Abstract

Recent advances in high-resolution microscopy let neuroscientists acquire neural-tissue volume data of extremely large sizes. However, the tremendous resolution and the high complexity of neural structures present big challenges to storage, processing, and visualization at interactive rates. A proposed system provides interactive exploration of petascale (petavoxel) volumes resulting from high-throughput electron microscopy data streams. The system can concurrently handle multiple volumes and can support the simultaneous visualization of high-resolution voxel segmentation data. Its visualization-driven design restricts most computations to a small subset of the data. It employs a multiresolution virtual-memory architecture for better scalability than previous approaches and for handling incomplete data. Researchers have employed it for a 1-teravoxel mouse cortex volume, of which several hundred axons and dendrites as well as synapses have been segmented and labeled.

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Year:  2013        PMID: 24808059      PMCID: PMC4296712          DOI: 10.1109/MCG.2013.55

Source DB:  PubMed          Journal:  IEEE Comput Graph Appl        ISSN: 0272-1716            Impact factor:   2.088


  6 in total

1.  Interactive histology of large-scale biomedical image stacks.

Authors:  Won-Ki Jeong; Jens Schneider; Stephen G Turney; Beverly E Faulkner-Jones; Dominik Meyer; Rüdiger Westermann; R Clay Reid; Jeff Lichtman; Hanspeter Pfister
Journal:  IEEE Trans Vis Comput Graph       Date:  2010 Nov-Dec       Impact factor: 4.579

2.  Interactive Volume Exploration of Petascale Microscopy Data Streams Using a Visualization-Driven Virtual Memory Approach.

Authors:  M Hadwiger; J Beyer; Won-Ki Jeong; H Pfister
Journal:  IEEE Trans Vis Comput Graph       Date:  2012-12       Impact factor: 4.579

3.  High-quality multimodal volume rendering for preoperative planning of neurosurgical interventions.

Authors:  Johanna Beyer; Markus Hadwiger; Stefan Wolfsberger; Katja Bühler
Journal:  IEEE Trans Vis Comput Graph       Date:  2007 Nov-Dec       Impact factor: 4.579

4.  Ssecrett and NeuroTrace: interactive visualization and analysis tools for large-scale neuroscience data sets.

Authors:  Wan-Ki Jeong; Johanna Beyer; Markus Hadwiger; Rusty Blue; Charles Law; Amelio Vazquez-Reina; R Clay Reid; Jeff Lichtman; Hanspeter Pfister
Journal:  IEEE Comput Graph Appl       Date:  2010 May-Jun       Impact factor: 2.088

5.  Scalable and interactive segmentation and visualization of neural processes in EM datasets.

Authors:  Won-Ki Jeong; Johanna Beyer; Markus Hadwiger; Amelio Vazquez; Hanspeter Pfister; Ross T Whitaker
Journal:  IEEE Trans Vis Comput Graph       Date:  2009 Nov-Dec       Impact factor: 4.579

6.  Network anatomy and in vivo physiology of visual cortical neurons.

Authors:  Davi D Bock; Wei-Chung Allen Lee; Aaron M Kerlin; Mark L Andermann; Greg Hood; Arthur W Wetzel; Sergey Yurgenson; Edward R Soucy; Hyon Suk Kim; R Clay Reid
Journal:  Nature       Date:  2011-03-10       Impact factor: 49.962

  6 in total
  6 in total

Review 1.  Viral vector-based tools advance knowledge of basal ganglia anatomy and physiology.

Authors:  Rachel J Sizemore; Sonja Seeger-Armbruster; Stephanie M Hughes; Louise C Parr-Brownlie
Journal:  J Neurophysiol       Date:  2016-02-17       Impact factor: 2.714

2.  Enabling Interactive Measurements from Large Coverage Microscopy.

Authors:  Peter Bajcsy; Antoine Vandecreme; Julien Amelot; Joe Chalfoun; Michael Majurski; Mary Brady
Journal:  Computer (Long Beach Calif)       Date:  2016-07       Impact factor: 2.683

3.  ConnectomeExplorer: query-guided visual analysis of large volumetric neuroscience data.

Authors:  Johanna Beyer; Ali Al-Awami; Narayanan Kasthuri; Jeff W Lichtman; Hanspeter Pfister; Markus Hadwiger
Journal:  IEEE Trans Vis Comput Graph       Date:  2013-12       Impact factor: 4.579

4.  A Virtual Reality Visualization Tool for Neuron Tracing.

Authors:  Will Usher; Pavol Klacansky; Frederick Federer; Peer-Timo Bremer; Aaron Knoll; Jeff Yarch; Alessandra Angelucci; Valerio Pascucci
Journal:  IEEE Trans Vis Comput Graph       Date:  2017-08-29       Impact factor: 4.579

Review 5.  Multi-scale brain networks.

Authors:  Richard F Betzel; Danielle S Bassett
Journal:  Neuroimage       Date:  2016-11-11       Impact factor: 6.556

6.  A Process for Digitizing and Simulating Biologically Realistic Oligocellular Networks Demonstrated for the Neuro-Glio-Vascular Ensemble.

Authors:  Jay S Coggan; Corrado Calì; Daniel Keller; Marco Agus; Daniya Boges; Marwan Abdellah; Kalpana Kare; Heikki Lehväslaiho; Stefan Eilemann; Renaud Blaise Jolivet; Markus Hadwiger; Henry Markram; Felix Schürmann; Pierre J Magistretti
Journal:  Front Neurosci       Date:  2018-09-25       Impact factor: 4.677

  6 in total

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