EMPIAR-10815 - Cryo electron tomograms of mouse DRG axons (dataset 1) [multiple data sets in MRC format]

EMPIAR-10815

Cryo electron tomograms of mouse DRG axons (dataset 1) [multiple data sets in MRC format]

Publication:

A cryo-ET survey of microtubules and intracellular compartments in mammalian axons

Foster HE, Ventura Santos C, Carter AP

Journal of Cell Biology 221 (2021)

PMID: 34878519

DOI: 10.1083/jcb.202103154

Related EMDB entry:

EMD-13601 EMD-13602 EMD-13600

Deposited:

2021-07-28

Released:

2021-12-17

Last modified:

2021-12-17

Imageset size:

200.79 GB

Imageset DOI:

10.6019/EMPIAR-10815

Experimental metadata:

Download xml json

Contains:

reconstructed volumes
tilt series

Image Sets

1. Tomograms of mouse dorsal root ganglion axons (dataset 1) binned by 4 and deconvolved

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(927, 927)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(13.76, 13.76)

Details:

Reconstructed bin4 tomograms. Volumes were filtered using the Wiener-like deconvolution filter implemented in WARP (Tegunov 2018, https://github.com/dtegunov/tom\_deconv). Tomograms were reconstructed in IMOD by weighted back projection.

Files:

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2. Corrected, aligned, dose-filtered and order-sorted tilt series for mouse dorsal root ganglion axons (dataset 1)

Category:

tilt series

Image format:

MRC

No. of images or tilt series:

Image size:

(3710, 3710)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(3.44, 3.44)

Details:

Corrected, aligned, dose-filtered and sorted tilt series. The tilt series were generated from the raw frame images by correction for gain, defects and motion. In addition, tilt images were dose-filtered. Gain-correction and defects files are provided in the Raw_frames folder. Motion-correction was performed with alignframes (IMOD) operated in subTOM.

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）