EMPIAR-12195 - Training Set for CryoVesNet - Cryo-electron tomograms of rat synaptosomes and synaptic vesicle segmentation [multiple data sets in MRC format]

EMPIAR-12195

Training Set for CryoVesNet - Cryo-electron tomograms of rat synaptosomes and synaptic vesicle segmentation [multiple data sets in MRC format]

Publication:

CryoVesNet: A Dedicated Framework for Synaptic Vesicle Segmentation in Cryo Electron Tomograms

Khosrozadeh A, Seeger R, Witz G, Radecke J, Sørensen JB, Zuber B

bioRxiv (2024)

Related EMDB entry:

EMD-18728

Deposited:

2024-07-22

Released:

2024-11-19

Last modified:

2024-11-19

Imageset size:

8.87 GB

Imageset DOI:

10.6019/EMPIAR-12195

Experimental metadata:

Download xml json

Contains:

tilt series
reconstructed volumes

Image Sets

1. Tilt series of rat synaptosomes

Category:

tilt series

Image format:

MRC

No. of images or tilt series:

Image size:

(2048, 2048)

Pixel type:

SIGNED 16 BIT INTEGER

Pixel spacing:

(None, None)

Details:

---

Files:

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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.

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Download a list of selected files.

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

2. tomograms of rat synaptosomes

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(None, None)

Pixel type:

SIGNED 16 BIT INTEGER

Pixel spacing:

(None, None)

Details:

One tomogram has another voxel type (spray_ctrl_6) : bytes - signed in file

Files:

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)

3. tomograms that have been binned, trimmed, and denoised with non linear anisotropic diffusion

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(None, None)

Pixel type:

SIGNED 16 BIT INTEGER

Pixel spacing:

(None, None)

Details:

---

Files:

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

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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)

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