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Deconvolution software

Manufactured by Cytiva

Deconvolution software is a tool used in scientific research to analyze and process data obtained from various analytical techniques. The core function of this software is to recover the original signal from a measured or observed signal that has been distorted or blurred due to the limitations of the measurement process. This software employs mathematical algorithms to remove the effects of the distortion, allowing researchers to obtain more accurate and meaningful data for their experiments and analyses.

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3 protocols using deconvolution software

1

HEK293T Transfection and Inclusion Counting

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HEK293T cells were grown in 12 well tissue culture plate with poly-lysine-coated cover slips. Htt N548-EGFP construct mixed with empty vector or NOS construct in 1:1 ratio (ng) was used to transfect HEK293T cells by Lipofectamine 3000 (L3000015). After two days expression, cells were fixed by 4% formaldehyde at room temperature in dark for 10 minutes. Then rinsed the samples with PBS for three times. The mounting medium (with DAPI) was then applied to the sample incubation at the room temperature in dark for 5 minutes, followed by sealing with nail polish. The EGFP-positive cells were counted to calculate the percentage of cells with N548-EGFP inclusion(s). Fluorescent signals from DAPI and EGFP were acquired by LEICA DMI4000 B microscopy/LEICA DFC345 FX camera. To obtain high resolution image, DeltaVision RT wide-field fluorescence imaging system (Applied Precision, Inc) and CCD digital camera (Photometrics CoolSnap HQ) were used. To remove out-of-focus light, deconvolution software (Applied Precision, Inc) was applied.
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2

Microscopic Visualization of Cell Samples

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Cell samples were visualized using an Olympus IX71 microscope equipped with a personal Delta Vision system and a Photometrics CoolSnap HQ2 monochrome camera. Stacks of seven Z-series sections were acquired at 0.2-μm intervals. All fluorescence images are maximum two-dimensional projections of Z-series and were analyzed using deconvolution software from Applied Precision (Issaquah, WA). Measurements were made from micrographs using the ImageJ (National Institutes of Health, Bethesda, MD) or MetaMorph (Molecular Devices, Sunnyvale, CA) programs. For calcofluor, cells were harvested (1 ml), washed once, and resuspended in water with 20 μg/ml of calcofluor at room temperature.
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3

Cell Morphology and DNA Repair Protein Localization

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Images and cell length measurements were obtained using an Olympus IX71 microscope equipped with a personal Delta Vision system and a Photometrics CoolSnap HQ2 monochrome camera, with Metamorph software (Universal Imaging, Molecular Devices, Downingtown, PA, USA). Measurements were made from micrographs using the IMAGEJ (National Institutes of Health). All microscopy was conducted on live midlog-phase cells placed on slides, except for cultures for DAPI and aniline blue staining, which were fixed in 70% ethanol at room temperature, washed, and pelleted before resuspension in 5 μl of DAPI solution (500 μg/ml). More than 200 dividing cells per strain were measured for the cell length data. Stacks of ten z-series sections were acquired at 0.2-μm intervals. All fluorescence images are maximum two-dimensional (2D) projections of z-series and were analyzed using deconvolution software from Applied Precision. To calculate the area of the nucleus occupied by Rad52p-YFP a binary mask was created using the mean value of the nuclear background without foci as a threshold and measuring the area of this mask. To detect Rad51p indirect immunofluorescence microscopy was performed according to the protocol described in (46 (link)). The rabbit polyclonal anti-human Rad51p (PA5-27195, Thermo Fisher, Rockford, IL, USA) was diluted 1.100.
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