EMPIAR-10923 - Cryo-electron tomographs of mouse hippocampal neurons [63 reconstructed volumes in MRC format]

EMPIAR-10923

Cryo-electron tomographs of mouse hippocampal neurons [63 reconstructed volumes in MRC format]

Publication:

In situ cryo-electron tomography reveals local cellular machineries for axon branch development

Nedozralova H, Basnet N, Ibiricu I, Bodakuntla S, Biertümpfel C, Mizuno N

The Journal of cell biology 221 (2022)

PMID: 35262630

DOI: 10.1083/jcb.202106086

Related EMDB entry:

EMD-25485 EMD-25486

Deposited:

2021-12-23

Released:

2022-03-04

Last modified:

2022-10-10

Imageset size:

88.57 GB

Imageset DOI:

10.6019/EMPIAR-10923

Experimental metadata:

Download xml json

Contains:

reconstructed volumes

Image Sets

1. Reconstructed 4x binned tomograms of hippocampal neurons.

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(928, 928)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(21.8, 21.8)

Details:

Tilt-series were filtered according to the cumulative radiation dose (Grant and Grigorieff, 2015) and aligned on the basis of the patch tracking algorithm using the IMOD ETOMO package (Kremer et al., 1996). Tomograms were reconstructed from aligned stacks using weighted back-projection in IMOD. Tomograms were further 4x binned, resulting in pixel sizes of 21.8 Å. Tomograms were denoised by edge enhancing diffusion (bnad command in Bsoft (Heymann et al., 2008)).

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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）