EMPIAR-11063
Cryo-EM data and 2DTM results of entire sections of differentiated ER-HoxB8 cells [multiple data sets in TIFF and MRC formats]
Publication:

Defocus Corrected Large Area Cryo-EM (DeCo-LACE) for label-free detection of molecules across entire cell sections

Elferich J, Schiroli G, Scadden DT, Grigorieff N

eLife 11 (2022)

PMID: 36382886

Related EMDB entry:
Deposited:
2022-06-01
Released:
2023-02-01
Last modified:
2023-02-13
Imageset size:
1.26 TB
Imageset DOI:
Experimental metadata:
Download xml json
Contains:
  • micrographs - multiframe
  • micrographs - single frame
  • stitched maps
1. Unaligned multi-frame micrographs of ER-HoxB8 lamella
Category:
micrographs - multiframe
Image format:
TIFF
No. of images or tilt series:
4647
Image size:
(11520, 8184)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(0.6667, 0.6667)
Details:
For each lamella a cisTEM project is provided. Raw movies are under /data/???_Lamella?/Assets/Movies/*.tif. The SerialEM metadata and gain references are in the same folder.
Files:
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2. Aligned micrographs of ER-HoxB8 lamella
Category:
micrographs - single frame
Image format:
MRC
No. of images or tilt series:
4647
Image size:
(None, None)
Pixel type:
32 BIT FLOAT
Pixel spacing:
(1.5, 1.5)
Details:
For each lamella a cisTEM project is provided. Aligned micrographs are under /data/???_Lamella?/Assets/Images/*_0.mrc. Since each micrographs is cropped to the beam, the dimensions are different for every micrograph. A mask that indicated the illuminated area is provided for each micropgraph under *_mask.mrc
Files:
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3. 2DTM results of micrographs of ER-HoxB8 lamella
Category:
stitched maps
Image format:
MRC
No. of images or tilt series:
4647
Image size:
(None, None)
Pixel type:
32 BIT FLOAT
Pixel spacing:
(1.5, 1.5)
Details:
2DTM results can be found in the /data/???_Lamella?/Assets/TemplateMatching/ folder. For each image there are several mrc files that encode SNR, defocus, psi, theta, and phi at each pixel. To reduce file size pixels where the scaled SNR was below 6.5 (substantially below detection threshold) were set to 0 and the files were compressed using zstd.
Files:
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4. Stitched maps of lamellae imaged using DeCo-LACE - Overview
Category:
stitched maps
Image format:
TIFF
No. of images or tilt series:
8
Image size:
(None, None)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(75.0, 75.0)
Details:
Stitched maps of lamellae made from individual DeCo-LACE exposures. The files ???_Lamella?_montage_t2_tophat.tif were resampled to 75A pixel size and the exposure was flattened using a top-hat filter.
Files:
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5. Stitched maps of lamellae imaged using DeCo-LACE - High resolution
Category:
stitched maps
Image format:
TIFF
No. of images or tilt series:
8
Image size:
(14010, 17082)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(7.5, 7.5)
Details:
Stitched maps of lamellae made from individual DeCo-LACE exposures. The files ???_Lamella?_montage_t2_highres.tif were resampled to 7.5A pixel size.
Files:
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Files:
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