EMPIAR-11683 - 3D reconstructions of parasite development and the intracellular niche of the microsporidian pathogen E. intestinalis [multiple data sets in DM4 format]

EMPIAR-11683

3D reconstructions of parasite development and the intracellular niche of the microsporidian pathogen E. intestinalis [multiple data sets in DM4 format]

Publication:

3D reconstructions of parasite development and the intracellular niche of the microsporidian pathogenE. intestinalis

Riggi MR, Antao NV, Lam C, Davydov A, Sall J, Petzold C, Liang F, Iwasa J, Ekiert DC, Bhabha G

bioRxiv (2023)

PMID: 37425741

DOI: 10.1101/2023.07.02.547383

Related EMDB entry:

Deposited:

2023-09-06

Released:

2023-10-17

Last modified:

2023-10-17

Imageset size:

577.61 GB

Imageset DOI:

10.6019/EMPIAR-11683

Experimental metadata:

Download xml json

Contains:

micrographs - single frame

Image Sets

1. 24h infected cell 1

Category:

micrographs - single frame

Image format:

DM4

No. of images or tilt series:

Image size:

(20000, 35000)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(20.0, 20.0)

Details:

Unaligned and unprocessed micrograph stack of a Vero cell at 24 hours post infection with E. intestinalis. Slice thickness=50nm. Images were processed in Fiji using the Gaussian blur filter with a sigma (radius=2) prior to analysis in Dragonfly.

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2. 24h infected cell 2

Category:

micrographs - single frame

Image format:

DM4

No. of images or tilt series:

116

Image size:

(30000, 25000)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(20.0, 20.0)

Details:

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3. 48h infected cell 1

Category:

micrographs - single frame

Image format:

DM4

No. of images or tilt series:

200

Image size:

(12000, 12000)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(20.0, 20.0)

Details:

Unaligned and unprocessed micrograph stack of a Vero cell at 48 hours post infection with E. intestinalis. Slice thickness=30nm. Images were processed in Fiji using the Gaussian blur filter with a sigma (radius=2) prior to analysis in Dragonfly.

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4. 48h infected cell 2

Category:

micrographs - single frame

Image format:

DM4

No. of images or tilt series:

Image size:

(22000, 23000)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(20.0, 20.0)

Details:

Unaligned and unprocessed micrograph stack of a Vero cell at 48 hours post infection with E. intestinalis. There are two ROIs associated with this infected cell: ROI00 (22000x23000) and ROI01 (22000x23000). ROI00 and ROI01 were stitched together for segmentation analysis. Slice thickness=50nm. Images were processed in Fiji using the Gaussian blur filter with a sigma (radius=2) prior to analysis in Dragonfly.

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5. 48h infected cell 3

Category:

micrographs - single frame

Image format:

DM4

No. of images or tilt series:

Image size:

(25000, 20000)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(20.0, 20.0)

Details:

Unaligned and unprocessed micrograph stack of a parasitophorous vacuole in a Vero cell at 48 hours post infection with E. intestinalis. Slice thickness=50nm. Images were processed in Fiji using the Gaussian blur filter with a sigma (radius=2) prior to analysis in Dragonfly.

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6. 48h infected cell 4

Category:

micrographs - single frame

Image format:

DM4

No. of images or tilt series:

Image size:

(14000, 15000)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(20.0, 20.0)

Details:

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7. 48h infected cell 5

Category:

micrographs - single frame

Image format:

DM4

No. of images or tilt series:

Image size:

(14000, 15000)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(20.0, 20.0)

Details:

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8. Purified spores dataset 1

Category:

micrographs - single frame

Image format:

DM4

No. of images or tilt series:

140

Image size:

(5000, 5000)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(20.0, 20.0)

Details:

E. intestinalis spores purified from Vero cells. Slice thickness=50nm. Images were processed in Fiji using the Gaussian blur filter with a sigma (radius=2) prior to analysis in Dragonfly.

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

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9. Purified spores dataset 2

Category:

micrographs - single frame

Image format:

DM4

No. of images or tilt series:

140

Image size:

(5000, 5000)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(20.0, 20.0)

Details:

E. intestinalis spores purified from Vero cells. Slice thickness=50nm. Images were processed in Fiji using the Gaussian blur filter with a sigma (radius=2) prior to analysis in Dragonfly.

Files:

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

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10. Uninfected cell 1

Category:

micrographs - single frame

Image format:

DM4

No. of images or tilt series:

Image size:

(12500, 12500)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(25.0, 25.0)

Details:

Partial volume of an uninfected Vero cell. Slice thickness=60nm. Images were processed in Fiji using the Gaussian blur filter with a sigma (radius=2) prior to analysis in Dragonfly.

Files:

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11. Uninfected cell 2

Category:

micrographs - single frame

Image format:

DM4

No. of images or tilt series:

Image size:

(12500, 12500)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(25.0, 25.0)

Details:

Partial volume of an uninfected Vero cell. Slice thickness=60nm. Images were processed in Fiji using the Gaussian blur filter with a sigma (radius=2) prior to analysis in Dragonfly.

Files:

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

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