EMPIAR-11462 - Electron cryo-tomography data on the ER-mitochondria encounter structure in cryo-FIB milled yeast cells [multiple data sets in MRC and TIFF formats]

EMPIAR-11462

Electron cryo-tomography data on the ER-mitochondria encounter structure in cryo-FIB milled yeast cells [multiple data sets in MRC and TIFF formats]

Publication:

In situ architecture of the ER-mitochondria encounter structure

Wozny MR, Di Luca A, Morado DR, Picco A, Khaddaj R, Campomanes P, Ivanovic L, Hoffmann PC, Miller EA, Vanni S, Kukulski W

Nature (2023)

PMID: 37165187

DOI: 10.1038/s41586-023-06050-3

Related EMDB entry:

EMD-15355

Deposited:

2022-08-12

Released:

2023-03-22

Last modified:

2023-03-22

Imageset size:

236.59 GB

Imageset DOI:

10.6019/EMPIAR-11462

Experimental metadata:

Download xml json

Contains:

tilt series
micrographs - multiframe

Image Sets

1. Tilt series aligned using patch tracking, final stage before tomogram reconstruction

Category:

tilt series

Image format:

MRC

No. of images or tilt series:

Image size:

(2046, 2880)

Pixel type:

SIGNED 16 BIT INTEGER

Pixel spacing:

(5.368, 5.368)

Details:

Each folder contains one of 51 tilt series of cryo-FIB milled yeast cells expressing Mdm34-mNeonGreen, aligned using IMOD patch tracking. The tilt series have been generated from the raw frames also available in this EMPIAR entry. Two binning steps occurred; the first during frame alignment and the second during tilt series alignment. The resulting tilt series consist of varying numbers of tilt images. Tilt images that aligned poorly were excluded from the final alignment.

data/K3defectfile_gainrefs
This folder contains the gain reference files and the K3 defect file that were applied to process the raw tilt images. The additional .csv file indicates which gain reference was applied to which tilt series raw data. The single defect file applies to all raw data.

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2. Unaligned frames of dose-fractionated tilt images

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

Image size:

(11520, 8184)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(1.342, 1.342)

Details:

Each folder contains the frames, as tiff stacks, corresponding to one tilt series, acquired on cryo-FIB milled yeast cells expressing Mdm34-mNeonGreen. The naming corresponds to that of the final aligned tilt series also available in this entry.

data/K3defectfile_gainrefs
This folder contains the gain reference files and the K3 defect file that were applied to process the raw tilt images. The additional .csv file indicates which gain reference was applied to which tilt series raw data. The single defect file applies to all raw data.

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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