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

Related EMDB entry:
Deposited:
2021-09-02
Released:
2021-12-03
Last modified:
2022-01-21
Imageset size:
206.20 GB
Imageset DOI:
Experimental metadata:
Download xml json
Contains:
  • micrographs - multiframe
  • tilt series
  • reconstructed volumes
1. Raw image frames of mouse dorsal root ganglion axons (dataset 2)
Category:
micrographs - multiframe
Image format:
TIFF
No. of images or tilt series:
39
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:
Loading...
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:
39
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:
Loading...
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:
39
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:
Loading...
Files:
Loading...

Ito F, Alvarez-Cabrera AL, Liu S, Yang H, Shiriaeva A, Zhou ZH, Chen XS. (2023)
Rigden DJ, Fernández XM. (2023)
Iudin A, Korir PK, Somasundharam S, Weyand S, Cattavitello C, Fonseca N, Salih O, Kleywegt GJ, Patwardhan A. (2023)
Serra Lleti JM, Steyer AM, Schieber NL, Neumann B, Tischer C, Hilsenstein V, Holtstrom M, Unrau D, Kirmse R, Lucocq JM, Pepperkok R, Schwab Y. (2023)
Caldwell BJ, Norris AS, Karbowski CF, Wiegand AM, Wysocki VH, Bell CE. (2022)