In vitro genotoxicity testing using γH2AX biomarker, Microscopy Dataset
The Dataset was used and is supplementary to the paper "In vitro genotoxicity testing using γH2AX biomarker, microscopy and automatic image analysis in ImageJ - a pilot study with valinomycin". It contains both RAW single-channel images and numerical results obtained with BioImage Analysis...
| Main Authors: | , , |
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| Format: | Dataset |
| Language: | English |
| Published: |
2023
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| Subjects: | |
| Online Access: | https://zenodo.org/record/7673199 https://doi.org/10.5281/zenodo.7673199 |
| Summary: | The Dataset was used and is supplementary to the paper "In vitro genotoxicity testing using γH2AX biomarker, microscopy and automatic image analysis in ImageJ - a pilot study with valinomycin". It contains both RAW single-channel images and numerical results obtained with BioImage Analysis and evaluation available through the GitHub repository: https://github.com/martinschatz-cz/genotoxicity-bia. Naming Convention for images ChannelName_YYYYMMD_Well_PossitionInWell_AcqRun.tiff Naming Convention for results Well_AllResults_YYYY-MM-DD_Results.csv The csv are ‘,’ separated, and automatically named by analysis script. Folder Structure Images (1069 files, as Images.zip) 4H - all images for all wells 24H - all images for all wells Results (36 files) Results_4H (as Results_4h.zip) Results_24H (as Results_24h.zip) Measurement Settings Manufacturer and model of microscope: Olympus IX83 P2ZF Objective lens magnification, NA: 10x Olympus IX3 Nosepiece, LensNA=0.3 Excitation filters (mounted in the light source) Violet: 395/25nm LED module 1, DAPI Green: 555/28nm LED module 5, Cy3 Quad band filter set for DAPI/FITC/Cy3/Cy5 Quad band polychroic mirror (mounted in the filter turret): BP 411-454nm, BP 495-536nm, BP 577-617nm BP 655-810nm Emission filters (mounted in the fast emission filter wheel, infront the camera): DAPI: BP 421-445nm Cy3: BP 581-619nm Illumination light source: Lumencor Lumencor Spectra X Lamp Pixel size: 650nm x 650nm Camera manufacturer and model: Hamamatsu ORCA-Flash4.0 Software program(s) and version: OLYMPUS cellSens Dimension 3.2 (Build 23706) Image acquisition settings expposure 500 ms gain: 0 binning: 4 x 4 Experiment manager: ZDC + autofocus, two channels: DAPI and Cy3 Image Processing and Analysis The data analysis workflow consists of several stages, each of which was executed by a specific script. Firstly, the raw data were manually cleaned and automatically sorted and organized using sort_wells.ijm in FIJI. Secondly, image analysis was performed using Process_WFolder_macro_v1.ijm in FIJI, which ... |
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