EMPIAR-12660 - FIB-SEM Chinese Hamster Ovary cell line sample dataset [multiple data sets in TIFF and PNG formats]

EMPIAR-12660

FIB-SEM Chinese Hamster Ovary cell line sample dataset [multiple data sets in TIFF and PNG formats]

Publication:

Contextual High-throughput 3D Volume Electron Microscopy Data Acquisition Using Artificial Intelligence

Hurník Konečná T, Jančík R, Slamková D, Přibyl B, Tomova C, Rotkina L, Burch-Smith T, Sviben S, Fitzpatrick JAJ, Czymmek KJ

(---)

Related EMDB entry:

Deposited:

2025-04-01

Released:

2025-06-30

Last modified:

2025-06-30

Imageset size:

1.28 GB

Imageset DOI:

10.6019/EMPIAR-12660

Experimental metadata:

Download xml json

Contains:

reconstructed volumes
micrographs - single frame

Image Sets

1. FIB-SEM Chinese Hamster Ovary cell line sample dataset

Category:

reconstructed volumes

Image format:

TIFF

No. of images or tilt series:

1043

Image size:

(1536, 1324)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(90.0, 90.0)

Details:

Thermo Scientific Auto Slice & View (ASV), version 5 - Spin Mill

Files:

This entry cannot be downloaded from PDBj.

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

Depending on the number and size of files to be downloaded, this can take an enormous amount of time. Also, this feature is unstable and may not work properly, and checksums of downloaded files are not verified.

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)

2. FIB-SEM Chinese Hamster Ovary cell line sample dataset - annotation by user on the first slice

Category:

micrographs - single frame

Image format:

PNG

No. of images or tilt series:

Image size:

(1534, 1324)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(90.0, 90.0)

Details:

Manual annotation by user on the first slice.

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)

Browse All Files

Quick Links

Talks and Tutorials

EMPIAR Quick tour

Statistics

Publications

Re-use case study

EMPIAR in the news

Claim entries to your ORCiD

COVID-19 Data Portal

EMDB

PDBe

BioImage Archive

EMNavigator@PDBj

PDBj

RCSB@PDBj

EMDataResoruce@RCSB,EMDB,NCMI

Citations

Small LEA proteins mitigate air-water interface damage to fragile cryo-EM samples during plunge freezing.

Abe KM, Li G, He Q, Grant T, Lim CJ. (2024)

Outer membrane protein assembly mediated by BAM-SurA complexes.

Fenn KL, Horne JE, Crossley JA, Böhringer N, Horne RJ, Schäberle TF, Calabrese AN, Radford SE, Ranson NA. (2024)

Ubiquitinated histone H2B as gatekeeper of the nucleosome acidic patch.

Hicks CW, Rahman S, Gloor SL, Fields JK, Husby NL, Vaidya A, Maier KE, Morgan M, Keogh MC, Wolberger C. (2024)

Molecular recognition of an odorant by the murine trace amine-associated receptor TAAR7f.

Gusach A, Lee Y, Khoshgrudi AN, Mukhaleva E, Ma N, Koers EJ, Chen Q, Edwards PC, Huang F, Kim J, Mancia F, Veprintsev DB, Vaidehi N, Weyand SN, Tate CG. (2024)

The novel ribosome biogenesis inhibitor usnic acid blocks nucleolar pre-60S maturation.

Kofler L, Grundmann L, Gerhalter M, Prattes M, Merl-Pham J, Zisser G, Grishkovskaya I, Hodirnau VV, Vareka M, Breinbauer R, Hauck SM, Haselbach D, Bergler H. (2024)

See all citations

Protein Data Bank Japan News

[2025-07-30]

346 new PDB entries have been released on 2025-07-30.

[2025-07-17]

[wwPDB] Transitioning to PDBx/mmCIF and Extended PDB IDs

[2025-06-25]

[wwPDB] Extension to EMDB Accession Codes

[2025-04-18]

[wwPDB] Download Snapshots of the PDB Core Archive via HTTPS, SYNC, RSYNC, or FTP

[2025-03-25]

Announcement of the PDBj Newsletter Vol.25 release