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3D reconstruction of biological structures: automated procedures for alignment and reconstruction of multiple tilt series in electron tomography

Overview of attention for article published in Advanced Structural and Chemical Imaging, June 2016
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Title
3D reconstruction of biological structures: automated procedures for alignment and reconstruction of multiple tilt series in electron tomography
Published in
Advanced Structural and Chemical Imaging, June 2016
DOI 10.1186/s40679-016-0021-2
Pubmed ID
Authors

Sébastien Phan, Daniela Boassa, Phuong Nguyen, Xiaohua Wan, Jason Lanman, Albert Lawrence, Mark H. Ellisman

Abstract

Transmission electron microscopy allows the collection of multiple views of specimens and their computerized three-dimensional reconstruction and analysis with electron tomography. Here we describe development of methods for automated multi-tilt data acquisition, tilt-series processing, and alignment which allow assembly of electron tomographic data from a greater number of tilt series, yielding enhanced data quality and increasing contrast associated with weakly stained structures. This scheme facilitates visualization of nanometer scale details of fine structure in volumes taken from plastic-embedded samples of biological specimens in all dimensions. As heavy metal-contrasted plastic-embedded samples are less sensitive to the overall dose rather than the electron dose rate, an optimal resampling of the reconstruction space can be achieved by accumulating lower dose electron micrographs of the same area over a wider range of specimen orientations. The computerized multiple tilt series collection scheme is implemented together with automated advanced procedures making collection, image alignment, and processing of multi-tilt tomography data a seamless process. We demonstrate high-quality reconstructions from samples of well-described biological structures. These include the giant Mimivirus and clathrin-coated vesicles, imaged in situ in their normal intracellular contexts. Examples are provided from samples of cultured cells prepared by high-pressure freezing and freeze-substitution as well as by chemical fixation before epoxy resin embedding.

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The data shown below were collected from the profiles of 4 X users who shared this research output. Click here to find out more about how the information was compiled.
Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 55 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Germany 1 2%
Canada 1 2%
Unknown 53 96%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 13 24%
Researcher 8 15%
Student > Master 6 11%
Student > Bachelor 4 7%
Professor 3 5%
Other 8 15%
Unknown 13 24%
Readers by discipline Count As %
Agricultural and Biological Sciences 12 22%
Biochemistry, Genetics and Molecular Biology 9 16%
Engineering 6 11%
Physics and Astronomy 3 5%
Materials Science 3 5%
Other 6 11%
Unknown 16 29%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 2. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 24 August 2016.
All research outputs
#14,407,897
of 24,208,207 outputs
Outputs from Advanced Structural and Chemical Imaging
#17
of 30 outputs
Outputs of similar age
#193,728
of 358,020 outputs
Outputs of similar age from Advanced Structural and Chemical Imaging
#2
of 2 outputs
Altmetric has tracked 24,208,207 research outputs across all sources so far. This one is in the 39th percentile – i.e., 39% of other outputs scored the same or lower than it.
So far Altmetric has tracked 30 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 7.2. This one scored the same or higher as 13 of them.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 358,020 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 44th percentile – i.e., 44% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 2 others from the same source and published within six weeks on either side of this one.