EMPIAR-11394 - Electron cryo-tomography data of HeLa cells expressing Cidec-EGFP [multiple data sets in MRC format]

EMPIAR-11394

Electron cryo-tomography data of HeLa cells expressing Cidec-EGFP [multiple data sets in MRC format]

Publication:

The architecture of Cidec-mediated interfaces between lipid droplets

Ganeva I, Lim K, Boulanger J, Hoffmann PC, Muriel O, Borgeaud AC, Hagen WJH, Savage DB, Kukulski W

Cell Reports 42 (2023)

DOI: 10.1016/j.celrep.2023.112107

Related EMDB entry:

EMD-16455

Deposited:

2023-01-13

Released:

2023-02-22

Last modified:

2023-02-22

Imageset size:

187.33 GB

Imageset DOI:

10.6019/EMPIAR-11394

Experimental metadata:

Download xml json

Contains:

tilt series
reconstructed volumes

Image Sets

1. Unaligned tilt series or dose-fractionated tilt images acquired on cryo-FIB milled HeLa cells expressing Cidec-EGFP

Category:

tilt series

Image format:

MRC

No. of images or tilt series:

Image size:

(3838, 3710)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(3.7, 3.7)

Details:

Each subdirectory contains the raw data that was used for reconstruction of one electron cryo-tomogram. In 14 cases, the raw data are three unaligned, dose-fractionated frames per tilt image. In one case, the raw data is the unaligned series of tilt images.
Note that pixel sizes are either 3.7 or 7.1 Angstrom. Please check header in each case. The sample are cryo-FIB milled HeLa cells expressing Cidec-EGFP.

Files:

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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)

2. Reconstructed electron cryo-tomograms of cryo-FIB milled HeLa cells expressing Cidec-EGFP

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(1918, 1854)

Pixel type:

SIGNED BYTE

Pixel spacing:

(7.5, 7.5)

Details:

15 reconstructed tomograms, each obtained from the tilt images contained in one subdirectory of the directory RawData. The data was binned during the tilt series alignment. The resulting pixel sizes are either 7.5 or 7.1 Angstrom. Please check header in each case. Note that image width and height vary from case to case.

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）