Literature DB >> 14643216

Volumetric feature extraction and visualization of tomographic molecular imaging.

Chandrajit Bajaj1, Zeyun Yu, Manfred Auer.   

Abstract

Electron tomography is useful for studying large macromolecular complex within their cellular context. The associate problems include crowding and complexity. Data exploration and 3D visualization of complexes require rendering of tomograms as well as extraction of all features of interest. We present algorithms for fully automatic boundary segmentation and skeletonization, and demonstrate their applications in feature extraction and visualization of cell and molecular tomographic imaging. We also introduce an interactive volumetric exploration and visualization tool (Volume Rover), which encapsulates implementations of the above volumetric image processing algorithms, and additionally uses efficient multi-resolution interactive geometry and volume rendering techniques for interactive visualization.

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Year:  2003        PMID: 14643216     DOI: 10.1016/j.jsb.2003.09.037

Source DB:  PubMed          Journal:  J Struct Biol        ISSN: 1047-8477            Impact factor:   2.867


  13 in total

1.  Methods for generating high-resolution structural models from electron microscope tomography data.

Authors:  David B Ress; Mark L Harlow; Robert M Marshall; Uel J McMahan
Journal:  Structure       Date:  2004-10       Impact factor: 5.006

2.  Segmentation of electron tomographic data sets using fuzzy set theory principles.

Authors:  Edgar Garduño; Mona Wong-Barnum; Niels Volkmann; Mark H Ellisman
Journal:  J Struct Biol       Date:  2008-02-16       Impact factor: 2.867

3.  JUST (Java User Segmentation Tool) for semi-automatic segmentation of tomographic maps.

Authors:  Eleonora Salvi; Francesca Cantele; Lorenzo Zampighi; Nick Fain; Gaia Pigino; Guido Zampighi; Salvatore Lanzavecchia
Journal:  J Struct Biol       Date:  2007-07-12       Impact factor: 2.867

4.  Three-dimensional macromolecular organization of cryofixed Myxococcus xanthus biofilms as revealed by electron microscopic tomography.

Authors:  Hildur Palsdottir; Jonathan P Remis; Christoph Schaudinn; Eileen O'Toole; Renate Lux; Wenyuan Shi; Kent L McDonald; J William Costerton; Manfred Auer
Journal:  J Bacteriol       Date:  2009-01-23       Impact factor: 3.490

5.  Accurate membrane tracing in three-dimensional reconstructions from electron cryotomography data.

Authors:  Christopher Page; Dorit Hanein; Niels Volkmann
Journal:  Ultramicroscopy       Date:  2015-03-30       Impact factor: 2.689

6.  Three-dimensional architecture of hair-bundle linkages revealed by electron-microscopic tomography.

Authors:  Manfred Auer; Abrahram J Koster; Ulrike Ziese; Chandrajit Bajaj; Niels Volkmann; Da Neng Wang; A J Hudspeth
Journal:  J Assoc Res Otolaryngol       Date:  2008-04-18

7.  Shape-based regularization of electron tomographic reconstruction.

Authors:  Ajay Gopinath; Guoliang Xu; David Ress; Ozan Öktem; Sriram Subramaniam; Chandrajit Bajaj
Journal:  IEEE Trans Med Imaging       Date:  2012-08-20       Impact factor: 10.048

8.  Bacterial social networks: structure and composition of Myxococcus xanthus outer membrane vesicle chains.

Authors:  Jonathan P Remis; Dongguang Wei; Amita Gorur; Marcin Zemla; Jessica Haraga; Simon Allen; H Ewa Witkowska; J William Costerton; James E Berleman; Manfred Auer
Journal:  Environ Microbiol       Date:  2013-07-15       Impact factor: 5.491

9.  Three-dimensional geometric modeling of membrane-bound organelles in ventricular myocytes: bridging the gap between microscopic imaging and mathematical simulation.

Authors:  Zeyun Yu; Michael J Holst; Takeharu Hayashi; Chandrajit L Bajaj; Mark H Ellisman; J Andrew McCammon; Masahiko Hoshijima
Journal:  J Struct Biol       Date:  2008-09-19       Impact factor: 2.867

10.  PROTO-PLASM: parallel language for adaptive and scalable modelling of biosystems.

Authors:  Chandrajit Bajaj; Antonio DiCarlo; Alberto Paoluzzi
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2008-09-13       Impact factor: 4.226

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