EMPIAR-11113 - Integration of an event-driven Timepix3 hydrid pixel detector into a cryo-EM workflow [multiple data sets in MRCS and TPX3 formats]

EMPIAR-11113

Integration of an event-driven Timepix3 hydrid pixel detector into a cryo-EM workflow [multiple data sets in MRCS and TPX3 formats]

Publication:

Integration of an event-driven Timepix3 hydrid pixel detector into a cryo-EM workflow

van Schayck JP, Zhang Y, Knoops K, Peters PJ, Ravelli RBG

Microscopy & Microanalysis (---)

Related EMDB entry:

EMD-15389

Deposited:

2022-06-09

Released:

2023-01-30

Last modified:

2023-02-01

Imageset size:

2.67 TB

Imageset DOI:

10.6019/EMPIAR-11113

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe
micrographs - single frame

Image Sets

1. Processed but unaligned Timepix3 data. Processed with CNN-ToT event localisation, chip edge correction, deterministic blur (sigma=0.5) and stored at two times super resolution and gain corrected.

Category:

micrographs - multiframe

Image format:

MRCS

No. of images or tilt series:

2980

Image size:

(1032, 1032)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.6, 0.6)

Details:

Processed Timepix3 data. Processed with CNN-ToT event localisation, chip edge correction, deterministic blur (sigma=0.5) and stored at two times super resolution. Split into 50 frames. Frames have a fluence of ~1.0 e-/A^2. Frames have been gain corrected.

Files:

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rsync -av --files-from=(path-to-filelist) rsync://empiar.pdbj.org/empiar/archive (path-to-destination)

2. Raw, unprocessed Timepix3 data.

Category:

micrographs - single frame

Image format:

TPX3

No. of images or tilt series:

2978

Image size:

(512, 512)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(1.2, 1.2)

Details:

These are raw, unprocessed Timepix3 data. Recorded 1.5 s at a flux of 29 e/A^2/s with a 1.2 A pixelsize. Processing can be done using tpx3HitParser (https://doi.org/10.5281/zenodo.3641237) and generation of image frames using tpx3EventViewer (https://doi.org/10.5281/zenodo.3693989).

Files:

選択したファイルを無圧縮zipファイルにアーカイブ化してダウンロードします。

rsync、aspera、globus 等の利用をおすすめします。

選択したファイルのリストをダウンロードします。

rsyncコマンド等でファイルリストを指定してダウンロードすることが可能です。

rsync -av --files-from=(path-to-filelist) rsync://empiar.pdbj.org/empiar/archive (path-to-destination)

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Citations

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Deng Y, Wang S, Xiang M, Li Y, Zhuo L, Cao D, Fu X, Zou Q. (2026)

prismPYP: Power-spectrum and image domain learning for self-supervised micrograph evaluation.

He L, Bartesaghi A. (2026)

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CryoVirusDB: An Annotated Dataset for AI-Based Virus Particle Identification in Cryo-EM Micrographs.

Gyawali R, Dhakal A, Wang L, Cheng J. (2026)

Dual site targeting of the bacterial 70S ribosome by tetracyclines.

Devarkar SC, Lomakin IB, Wang J, Grada A, Bunick CG. (2026)

Deep-learning methods for contrast enhancement and artifact reduction in cryo-electron tomography: a systematic analysis of the state of the art and proposed improvements.

Jones HN, Deshmukh A, Pande K. (2026)

CryoGS: High-Quality Cryo-EM Homogeneous Reconstruction by Gaussian Splatting

Zeng B, Liu S, Cheng S, Xu G, Fan H. (2026)

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Protein Data Bank Japan News

[2026-06-10]

333件のPDBエントリーが新たに公開されました。（2026-06-10付）