EMPIAR-12049 - Cryo-Electron Tomography Data and Comprehensive Annotation of C. elegans Centrosomes in Interphase and Mitosis [multiple data sets in MRC and TIFF formats]

EMPIAR-12049

Cryo-Electron Tomography Data and Comprehensive Annotation of C. elegans Centrosomes in Interphase and Mitosis [multiple data sets in MRC and TIFF formats]

Publication:

Molecular architectures of centrosomes in C. elegans embryos visualized by cryo-electron tomography

Tollervey F., Rios M.U., Zagoriy I., Woodruff J.B., Mahamid J.

(---)

DOI: 10.1016/j.devcel.2024.12.002

Related EMDB entry:

EMD-19780 EMD-19781 EMD-19778 EMD-19779

Deposited:

2024-01-23

Released:

2025-06-30

Last modified:

2025-06-30

Imageset size:

111.35 GB

Imageset DOI:

10.6019/EMPIAR-12049

Experimental metadata:

Download xml json

Contains:

reconstructed volumes
micrographs - multiframe

Image Sets

1. Raw reconstructed tomograms of C. elegans centrosomes

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(980, 928)

Pixel type:

UNSIGNED 32 BIT INTEGER

Pixel spacing:

(13.4808, 13.4808)

Details:

Tomograms aligned in etomo and reconstructed in warp using a back projection at 4x binning. A combination of patch tracking and fiducials were used depending on the tomogram

Files:

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

2. Unaligned multi-frame micrographs of C. elegans centrosomes

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

681

Image size:

(3838, 3710)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(3.37, 3.37)

Details:

Raw unaligned frame of C. elegans centrosomes, including metadata (modified and unmodified mdoc files), and alignment data (.xf, .rawtilt, and .st files). Images consist of 8 to 14 frames depending on the image set. To relate image set to centrosome number as seen in the label and tomogram directories, please refer to the readme file.

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

A variational framework with composite sparse regularization for cryo-electron tomography reconstruction.

Yu C, Xu Z, Zeng Q, Wan X, El-Messiry H, Zhang F, Han R. (2026)

CryoFSL: an annotation-efficient, few-shot learning framework for robust protein particle picking in cryo-electron microscopy micrographs.

Poudel B, Gyawali R, Dhakal A, Cheng J, Xu D. (2026)

CryoSIP: unleashing protein high-resolution Cryo-EM via semantic-instance collaborative picking.

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)

Unbend, correction of local beam-induced sample motion in cryo-EM images using a 3D spline model.

Kong L, Zottig X, Elferich J, Grigorieff N. (2026)

Chart builder: an interactive tool for user driven data visualization in the electron microscopy data bank.

Fonseca N, Duraisamy AK, Wang Z, Somasundharam S, Tayebinia M, de Oliveira LC, Ma M, Turner J, Patwardhan A, Kleywegt GJ, Hartley M, Morris KL. (2026)

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)

See all citations

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）