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Imagej 1.40g

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ImageJ 1.40g is an open-source image processing program designed for scientific multidimensional images. It provides tools for image analysis, processing, and measurement.

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2 protocols using imagej 1.40g

1

Confocal Microscopy Imaging and Analysis

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Images were acquired using a Hamamatsu EM-CCD camera and a Yokogawa CSU-10 spinning disk confocal mounted on a Zeiss AxioImager microscope with a 100× Plan-Apochromat objective. The microscope was controlled by iVision software (Biovision Technologies, Exton, PA) or microManager (Edelstein et al., 2010 ). Acquired images were processed to enhance brightness/contrast using ImageJ 1.40g and Photoshop (CS6 Extended Adobe Systems, InC., San Jose, CA), and smoothened using a 0.8 pixel radius Gaussian blur filter. 3D reconstructions were built from confocal Z-stacks, analyzed, and exported as (.mov) files using IMARIS 7.4 (Bitplane, Inc., Saint Paul, MN). Figures and graphs were constructed using Illustrator (CS3 Extended Adobe Systems, Inc., San Jose, CA) and JMP (Version 10, SAS Institute Inc., Cary, NC, 1989-2007). Movies were annotated using Photoshop. Timelapse imaging and invadopodia analysis was performed as described previously (Hagedorn et al., 2013 (link)).
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2

Quantifying Collagen Localization in C. elegans

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Images were acquired using a Hammamatsu EM-CCD camera, a spinning-disk confocal microscope (CSU-10; Yokogawa Corporation of America) mounted on an AxioImager base (Carl Zeiss) with 40× and 100× Plan Apochromat objectives (1.4 NA) and controlled by μManager [101 ]. Worms were photobleached on a Zeiss AxioImager A1 microscope with a 100× plan-apochromat objective by exposing a portion of the uterine/vulval tissue to 561 nm light for 2 minutes. Acquired images were processed to enhance brightness/contrast using ImageJ 1.40g and Photoshop (CS6 Extended Adobe Systems, InC., San Jose, CA). Colocalization analysis was performed on confocal z-stacks using the “Coloc” module in IMARIS 7.4 (Bitplane, Inc., Saint Paul, MN). Measurements of collagen::mCherry intensity at the BM were collected in ImageJ by measuring the mean grey value of a 3 pixel width line drawn along the BM. Measurements at the surface of the muscle were acquired using the same method, except a 2 pixel width line was used. An equivalent line was drawn in an adjacent region of the worm to measure the background signal within the worm, which was subtracted from the signal at the BM or muscle surface.
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