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Part 1: Document Description
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Citation |
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Title: |
Imaging of the calibration sample for L-SPIM |
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Identification Number: |
doi:10.48788/DVUA/Q8I551 |
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Distributor: |
DataverseUA |
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Date of Distribution: |
2026-09-16 |
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Version: |
1 |
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Bibliographic Citation: |
Olifirov, Borys; Ustymenko, Valeriia, 2026, "Imaging of the calibration sample for L-SPIM", https://doi.org/10.48788/DVUA/Q8I551, DataverseUA, V1 |
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Citation |
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Title: |
Imaging of the calibration sample for L-SPIM |
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Identification Number: |
doi:10.48788/DVUA/Q8I551 |
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Authoring Entity: |
Olifirov, Borys (Kyiv Academic University, Bogomoletz Institute of Physiology) |
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Ustymenko, Valeriia (Bogomoletz Institute of Physiology, Kyiv Aviation Institute) |
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Other identifications and acknowledgements: |
Olifirov, Borys |
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Producer: |
Fluorescence Imaging Laboratory |
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Software used in Production: |
MicroManager |
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Software used in Production: |
pymmcore-plus |
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Grant Number: |
Розпорядження НАН України №678 від 4.12.2024 р. |
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Distributor: |
DataverseUA |
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Distributor: |
Fluorescence Imaging Laboratory |
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Access Authority: |
Olifirov, Borys |
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Access Authority: |
Fluorescence Imaging Laboratory |
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Depositor: |
Olifirov, Borys |
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Date of Deposit: |
2026-08-25 |
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Holdings Information: |
https://doi.org/10.48788/DVUA/Q8I551 |
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Study Scope |
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Keywords: |
Medicine, Health and Life Sciences, Physics, SPIM |
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Topic Classification: |
Fluorescence microscopy |
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Abstract: |
Test acquisition using the prototype L-SPIM v0 setup. See detailed description in README.md. Sample details: - 0.2 μm yellow-green fluorescence beads. - Embended in 5% agarose. |
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Kind of Data: |
Fluorescence imaging data |
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Kind of Data: |
Post-processed fluorescence imaging data |
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Notes: |
Dataset structure: <br> - YG-02_x510_m545-40.tiff: original acquisition <br> - YG-02_x510_m545-40_crop.tiff: croped region of interest (ROI) <br> - YG-02_x510_m545-40_crop_interpolated.tiff: ROI with linear interpolation along z-axis to obtain isotropic pixel size (scale factor across z=625/493=1.27) <br> - psf_v0.tiff: distilled PSF <br> - report.png: PSF distillation and Gaussian fit results <br> <br> Images formatted as 16 bit grayscale uncompressed TIFFs, for viewing and editing use microscopic image viewers: ImageJ (https://imagej.net/ij/), Fiji (https://fiji.sc), napari (https://napari.org), Olympus FluoView, etc. |
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Methodology and Processing |
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Sources Statement |
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Data Access |
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Other Study Description Materials |
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Related Materials |
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For beads detection and distillation used <b>YG-02_x510_m545-40_crop_interpolated.tiff</b> file, individual detected beads avaliable in /beads folder. Analysis sript avaliable on GitHub: <b>https://github.com/wisstock/PSFDistiller.jl</b> |
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Label: |
psf_v0.tiff |
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Text: |
distilled PSF |
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Notes: |
image/tiff |
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Label: |
README.md |
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Text: |
detailed description of the dataset |
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Notes: |
text/markdown |
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Label: |
report.png |
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Text: |
PSF distillation and Gaussian fit results |
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Notes: |
image/png |
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Label: |
YG-02_x510_m545-40.tif |
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Notes: |
image/tiff |
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YG-02_x510_m545-40_crop.tif |
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Text: |
croped region of interest (ROI) |
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Notes: |
image/tiff |
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Label: |
YG-02_x510_m545-40_crop_interpolated.tif |
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Text: |
ROI with linear interpolation along z-axis to obtain isotropic pixel size |
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L_spim_metadata.json |
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Text: |
Machine-readable list of files and parameters. |
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Notes: |
application/json |