EMPIAR-10814 - Cryo electron tomograms of mouse DRG axons (dataset 2) [multiple data sets in TIFF and MRC formats]

EMPIAR-10814

Cryo electron tomograms of mouse DRG axons (dataset 2) [multiple data sets in TIFF and MRC formats]

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-12639 EMD-12640 EMD-13598 EMD-13599

Deposited:

2021-09-02

Released:

2021-12-03

Last modified:

2022-01-21

Imageset size:

206.20 GB

Imageset DOI:

10.6019/EMPIAR-10814

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe
tilt series
reconstructed volumes

Image Sets

1. Raw image frames of mouse dorsal root ganglion axons (dataset 2)

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

Image size:

(3710, 3838)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(2.75, 2.75)

Details:

Raw image frames were not gain or defect corrected. 10 frames were acquired per tilt. The gain reference is provided as gainref.dm4. The defects file is provided as defects.txt. The dose per tilt was 1.85 e/Å^2. SerialEM Mdoc files are provided in a separate folder (Mdoc_files) and can be used to generate stacks from the raw image frames. The pixel spacing of the raw image frames is 2.75 Å/pixel. The pixel spacing in the header of the raw image frames and in the Mdoc files (for stacks binned by 4) is inaccurate.

Files:

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

Category:

tilt series

Image format:

MRC

No. of images or tilt series:

Image size:

(3710, 3838)

Pixel type:

SIGNED 16 BIT INTEGER

Pixel spacing:

(2.75, 2.75)

Details:

Corrected, aligned, dose-filtered and order-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:

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

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3. Tomograms of mouse dorsal root ganglion axons (dataset 2) binned by 4 and deconvolved

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(959, 927)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(11.0, 11.0)

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:

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

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

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Browse All Files

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.

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