EMPIAR-12244 - Interleaved scanning electron microscopy: exploring native samples at the mesoscale.Adult mouse brain [multiple data sets in TIFF and MRC formats]

EMPIAR-12244

Interleaved scanning electron microscopy: exploring native samples at the mesoscale.Adult mouse brain [multiple data sets in TIFF and MRC formats]

Publication:

Reduction of SEM charging artefacts in native cryogenic biological samples.

Velazco A, Glen T, Klumpe S, Pennington A, Zhang J, Smith J, Glynn C, Bowles W, Kobylynska M, Fleck RA, Naismith JH, Kim JS, Darrow MC, Grange M, Kirkland AI

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Related EMDB entry:

Deposited:

2024-08-01

Released:

2024-12-02

Last modified:

2024-12-02

Imageset size:

344.75 GB

Imageset DOI:

10.6019/EMPIAR-12244

Experimental metadata:

Download xml json

Contains:

micrographs - single frame
micrographs - multiframe

Image Sets

1. Tiff subframes from scan gen

Category:

micrographs - single frame

Image format:

TIFF

No. of images or tilt series:

21500

Image size:

(2048, 2048)

Pixel type:

SIGNED 16 BIT INTEGER

Pixel spacing:

(6.34, 6.34)

Details:

---

Files:

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2. subframes to frame and cropped to remove flyback

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

215

Image size:

(1920, 1920)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(6.34, 6.34)

Details:

---

Files:

This entry cannot be downloaded from PDBj.

Archives and downloads the selected files into an uncompressed zip file.

We recommend using rsync, aspera, globus, etc.

Download a list of selected files.

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3. frames cropped and made of the subframe aligned with motiocor2

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

215

Image size:

(1920, 1920)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(6.34, 6.34)

Details:

---

Files:

This entry cannot be downloaded from PDBj.

Archives and downloads the selected files into an uncompressed zip file.

We recommend using rsync, aspera, globus, etc.

Download a list of selected files.

It is possible to download files by specifying the file list with rsync command, etc.

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

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Citations

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)

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)

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)

Point cloud deformation modeling for particle selection following cryo-EM 2D classification.

Wang X, Mo Z, Li F, Zhang F, Wan X. (2026)

ICECREAM: high-fidelity equivariant cryo-electron tomography.

Kishore V, Debarnot V, Righetto RD, Engel BD, Dokmanić I. (2026)

CryoSift: an accessible and automated CNN-driven tool for cryo-EM 2D class selection.

Schäfer JH, Calza A, Hom K, Damodar P, Peng R, Bogdanović N, Lander GC, Stagg SM, Cianfrocco MA. (2025)