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Zen pro

Manufactured by Zeiss
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Zen Pro is a software suite designed for microscopy and imaging applications. It provides a comprehensive platform for controlling and managing various Zeiss microscope systems. The core function of Zen Pro is to enable users to capture, analyze, and process high-quality images and data from their microscopes.

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Lab products found in correlation

Axio zoom v16, by Zeiss (8 mentions) Axio observer z1, by Zeiss (6 mentions) Axio imager m2, by Zeiss (5 mentions) Axiocam 506, by Zeiss (4 mentions) Axiocam 503, by Zeiss (4 mentions) Axio imager, by Zeiss (4 mentions) Axiocam mrm, by Zeiss (3 mentions) Axio scope a1 microscope, by Zeiss (2 mentions) Wf3 axio observer, by Zeiss (2 mentions) Axio observer z1 live cell imaging system, by Zeiss (2 mentions) Cal 520 am, by Abcam (2 mentions) Imager m2, by Zeiss (2 mentions) Axio observer, by Zeiss (2 mentions) Lsm 710, by Zeiss (2 mentions) Lsm 880 confocal microscope, by Zeiss (2 mentions) Axioimager m2 widefield, by Zeiss (1 mentions) Cm1900 cryostat, by Leica (1 mentions) Axio observer z1 microscope, by Zeiss (1 mentions) Axiovision, by Zeiss (1 mentions) Prolong gold antifade mountant with dapi, by Thermo Fisher Scientific (1 mentions)

Spelling variants of this product

Zen Pro software (100 citations) ZEN 2.3 Pro software (23 citations) Zen 2.6 Pro software (8 citations) Zen 2.5 pro software (3 citations) Zen Blue Pro (3 citations) ZEN Blue 2.5 Pro Software (3 citations) Zen 3.0 pro (3 citations) ZEN 2.0 Pro edition (3 citations) Zen Software (Blue Version 2.3 pro HWL, (2 citations) ZEN Blue Pro software (2 citations)

57 protocols using zen pro

1

Immunofluorescence Analysis of Adoptive B Cell Transfer

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Spleens were first fixed in 4% PFA for 3 hours at room temperature, then
sequentially immersed in 18% and 30% sucrose, and finally embedded in OCT
(Fisher) and flash-frozen using dry ice/EtOH bath. Five-to-seven-micron sections
were cut using a Leica CM1900 cryostat and stored at −80C prior to
staining. Sections were blocked with 5% rat serum for 1 hour at RT, and then
stained for 1 hour at RT with FITC B220 (clone RA3–6B2), APC anti-CD3
(clone 17A2), and either biotin-conjugated anti-λ1 light chain (clone
R11–153), or PE anti-IgDa (clone REA484) to identify adoptively
transferred IgHEL Tg B cells. Images were captured with a Zeiss Axio Imager M2
widefield fluorescence microscope. Images were processed using Zen Pro (Zeiss)
and Adobe Photoshop (Adobe).
Tan C., Mueller J.L., Noviski M., Huizar J., Lau D., Dubinin A., Molofsky A., Wilson P.C, & Zikherman J. (2019). “Nur77 links chronic antigen stimulation to B cell tolerance by restricting the survival of self-reactive B cells in the periphery”. Journal of immunology (Baltimore, Md. : 1950), 202(10), 2907-2923.
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2

Multi-modal Neuroanatomical Imaging of Spinal Circuits

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Sections were photographed and examined via an Olympus Cell Sens BX51 or Zeiss AxioImager M2 fluorescence microscope. The images were taken using a monochrome digital camera, pseudocolored within imaging software (Cell Sens BX51, Olympus or Zen Pro, Zeiss). In addition, a subset of tissue was processed for confocal microscopy using Olympus IX2-DSU Spinning Disk Confocal Fluorescent Microscope System (Tokyo, Japan). Individual images taken with the Olympus microscope were merged using Adobe Photoshop to create a composite image of the spinal cross section. Dual-labeled images taken with the Zeiss microscope were photographed in grey-scale, pseudo-colored, merged, and Z-stacks were flattened with an extended depth of field, using Zen 2012 software. Adobe Illustrator software (version 2015.2) was used to create camera lucida images of phrenic afferent projections.
Nair J., Bezdudnaya T., Zholudeva L., Detloff M.R., Reier P.J., Lane M.A, & Fuller D.D. (2016). Histological identification of phrenic afferent projections to the spinal cord. Respiratory physiology & neurobiology, 236, 57-68.
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3

Quantitative Analysis of Amyloid-beta and Synaptic Markers

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Surveys of Aβ deposition were performed in a 100X field in six 30μm serial anterior-posterior coronal sections, through each of three key brain regions, the frontal cortex, hippocampus, and entorhinal cortex. For quantitative assessment, the total area occupied by anti-Aβ immunoreactive deposits was measured and amyloid burden calculated as the percent of area in the measurement field occupied by reaction product. For denstiometric analyses of progranulin and synaptophysin immunolabeling in the hippocampus and cortex, a sampling frame of x = 50 μm, y = 50 μm, and z = 20 μm was used to sample these regions in each of 3 coronal sections. Optical densitometry was performed using Axiovision and Zen Pro software (Carl Zeiss). Digital images were captured on a Zeiss AxioObserver.Z1 microscope at a 20x magnification using a Zeiss Axiocam 506 monochrome camera. For comparisons of staining intensity, all images were collected using identical exposure settings using the same illumination intensity and filters. Measured values were corrected for non-specific background staining by subtracting values obtained from negative controls. Unbiased stereological measurements were obtained using a computer-assisted image analysis system and Zeiss Axiovision 4.3 image analysis software. The investigator was blinded to treatment condition.
Van Kampen J.M, & Kay D.G. (2017). Progranulin gene delivery reduces plaque burden and synaptic atrophy in a mouse model of Alzheimer's disease. PLoS ONE, 12(8), e0182896.
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4

Imaging and Quantification of Zebrafish Pharyngeal Skeleton

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Larvae were maintained under standard conditions at 28.5°C until 3 dpf and were positioned and imaged live as described (Isrie et al., 2015 (link)). Automated imaging was conducted with an AxioScope.A1 microscope and Axiocam 503 monochromatic camera facilitated by Zen Pro software (Zeiss), to capture dorsal images of GFP signal. Larval batches were positioned and imaged live using the Vertebrate Automated Screening Technology (VAST; software version 1.2.5.4; Union Biometrica) BioImager. Larvae from each experimental condition were anesthetized with 0.2 mg/mLTricaine prior to being loaded into the sample reservoir. Dorsal and lateral image templates of uninjected controls and experimental larvae were created and we acquired images at a > 70% minimum similarity for the pattern-recognition algorithms. Larvae were rotated to 180° to acquire ventral images via a 10x objective and fluorescent excitation at 470nm to detect GFP to capture fluorescent images of the pharyngeal skeleton. ImageJ software (NIH) was used to measure the angle of the ceratohyal cartilage. All experimental conditions were normalized to uninjected controls and set to 100 degrees. Statistical comparisons were performed using one-way ANOVA with Tukey’s test (GraphPad Prism).
Qiu Y., Arbogast T., Lorenzo S.M., Li H., Tang S.C., Richardson E., Hong O., Cho S., Shanta O., Pang T., Corsello C., Deutsch C.K., Chevalier C., Davis E.E., lakoucheva L.M., Herault Y., Katsanis N., Messer K, & Sebat J. (2019). Oligogenic Effects of 16p11.2 Copy-Number Variation on Craniofacial Development. Cell reports, 28(13), 3320-3328.e4.
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5

Toluidine Blue and Paragon Staining

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Toluidine blue was placed on the sections after fluorescent microscopy. It was left on for 20 min and then washed off, followed by 20 min of Paragon stain. Microscopy was performed in the bright-field mode (WF3 Zeiss Axio Observer, Zeiss Germany). Tiles of microscopic images were recorded and then auto-stitched together using Zen Pro software (Zeiss, Germany).
Reznikov N., Boughton O.R., Ghouse S., Weston A.E., Collinson L., Blunn G.W., Jeffers J.R., Cobb J.P, & Stevens M.M. (2019). Individual response variations in scaffold-guided bone regeneration are determined by independent strain- and injury-induced mechanisms. Biomaterials, 194, 183-194.
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6

Imaging and Quantification of Zebrafish Pharyngeal Skeleton

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Larvae were maintained under standard conditions at 28.5°C until 3 dpf and were positioned and imaged live as described (Isrie et al., 2015 (link)). Automated imaging was conducted with an AxioScope.A1 microscope and Axiocam 503 monochromatic camera facilitated by Zen Pro software (Zeiss), to capture dorsal images of GFP signal. Larval batches were positioned and imaged live using the Vertebrate Automated Screening Technology (VAST; software version 1.2.5.4; Union Biometrica) BioImager. Larvae from each experimental condition were anesthetized with 0.2 mg/mLTricaine prior to being loaded into the sample reservoir. Dorsal and lateral image templates of uninjected controls and experimental larvae were created and we acquired images at a > 70% minimum similarity for the pattern-recognition algorithms. Larvae were rotated to 180° to acquire ventral images via a 10x objective and fluorescent excitation at 470nm to detect GFP to capture fluorescent images of the pharyngeal skeleton. ImageJ software (NIH) was used to measure the angle of the ceratohyal cartilage. All experimental conditions were normalized to uninjected controls and set to 100 degrees. Statistical comparisons were performed using one-way ANOVA with Tukey’s test (GraphPad Prism).
Qiu Y., Arbogast T., Lorenzo S.M., Li H., Tang S.C., Richardson E., Hong O., Cho S., Shanta O., Pang T., Corsello C., Deutsch C.K., Chevalier C., Davis E.E., lakoucheva L.M., Herault Y., Katsanis N., Messer K, & Sebat J. (2019). Oligogenic Effects of 16p11.2 Copy-Number Variation on Craniofacial Development. Cell reports, 28(13), 3320-3328.e4.
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7

HEp-2 ANA Immunofluorescence Assay

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Serum ANA was detected with NOVA Lite HEp-2 ANA Substrate Slide as per manufacturer’s instructions except for using FITC-conjugated donkey anti-mouse IgG secondary antibody. Images were captured with a Zeiss Axio Imager M2 widefield fluorescence microscope. Images were processed with Zen Pro (Zeiss). To measure titer, serum was serially diluted 2-fold from 1:40 to 1:1280. HEp-2 ANA slides were stained with diluted serum. Images were read by a rheumatologist in a blinded manner, and titer was determined as the detectable lowest dilution of each sample.
Hiwa R., Nielsen H.V., Mueller J.L., Mandla R, & Zikherman J. (2021). NR4A family members regulate T cell tolerance to preserve immune homeostasis and suppress autoimmunity. JCI Insight, 6(17), e151005.
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8

Quantification of Pancreatic Islet Mass

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Pancreata were weighed prior to being fixed in Z-fix (VWR International) and embedded in paraffin. Blocks were sectioned at 5-µm thickness with a total of three to five slides (each separated by 500 µm) for immunostaining and imaging (7 (link)). Paraffin sections were rehydrated, permeabilized, blocked, and incubated with guinea pig polyclonal insulin antibody (1:60, A0564; Dako) and mouse polyclonal glucagon antibody (1:1,000; MilliporeSigma) overnight. Sections were washed and incubated with Alexa Fluor 488 goat anti-guinea pig IgG (1:500, A11073; Thermo Fisher Scientific) and Alexa Fluor 594 goat anti-mouse IgG (1:500 A11037; Thermo Fisher Scientific) for 1 h, washed, and mounted in ProLong Gold Antifade Mountant with DAPI (Life Technologies). To determine islet area, insulin-positive cells were identified with software tools from ImageJ (National Institutes of Health) and normalized to total pancreas area. The islet mass was calculated as pancreas weight × relative islet area (as a proportion of pancreas section area). Islet size was determined by manual outlining in a blinded fashion using ZEN Pro (Zeiss) and ImageJ software.
Lin H., Smith N., Spigelman A.F., Suzuki K., Ferdaoussi M., Alghamdi T.A., Lewandowski S.L., Jin Y., Bautista A., Wang Y.W., Manning Fox J.E., Merrins M.J., Buteau J, & MacDonald P.E. (2021). β-Cell Knockout of SENP1 Reduces Responses to Incretins and Worsens Oral Glucose Tolerance in High-Fat Diet–Fed Mice. Diabetes, 70(11), 2626-2638.
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9

Immunofluorescence and DSB Repair Assay

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Immunofluorescence and DSB repair analysis was carried out as described 16 –18 ; briefly, cells were fixed in 3% Paraformaldehyde containing 2% sucrose for 10 min, permeabilized for 3 min in 0.2% Triton X-100 in PBS and immunostained for 1 h with primary antibody (diluted in PBS containing 2% BSA), then 30 min with 1:200 dilutions of secondary antibodies (in PBS containing 2% BSA). Cells were counterstained with 0.1 µg/ml DAPI to visualize nuclei and were mounted using Polymount G. Samples were imaged with a Zeiss Axio Observer Z1 platform microscope, with a Plan-Apochromat 20x/0.8, an EC Plan-Neofluar 40x/0.75 or a Plan-Apochromatin 63x/1.4 (oil immersion) objective and an AxioCam MRm Rev.3 camera. Acquisition and analysis was done with Zen Pro (Zeiss) software. All error bars on DSB repair graphs indicate the standard deviation. DSB repair analysis within regions of heterochromatin was performed as described 18 .
Hansen R.K., Mund A., Poulsen S.L., Sandoval M., Klement K., Tsouroula K., Tollenaere M.A., Räschle M., Soria R., Offermanns S., Worzfeld T., Grosse R., Brandt D.T., Rozell B., Mann M., Cole F., Soutoglou E., Goodarzi A.A., Daniel J.A., Mailand N, & Bekker-Jensen S. (2016). SCAI promotes DNA double-strand break repair in distinct chromosomal contexts. Nature cell biology, 18(12), 1357-1366.
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10

Immunofluorescent Staining of Transfected Cells

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HEK293T cells seeded on 12mm coverslips were transfected with the indicated plasmid and 36 later, the cells were washed with PBS and fixed in 4% paraformaldehyde for 15 minutes. The cells were then washed with PBS, and incubated with 0.1% saponin for 10 minutes. The cells were subsequently immunostained with primary antibody for 1 hours at RT, washed in PBS and the incubated with the appropriate secondary antibody. Cells were then incubated with DAPI for 1 minute, prior to being mounted onto glass slides with Fluoromount G and sealed with nail polish. Images were acquired on a Zeiss inverted microscope. Image analysis to quantify fluorescence intensity was performed using Zen Pro software (Carl Zeiss Inc, Mississauga, ON).
Sauvageau E., McCormick P.J, & Lefrancois S. (2017). In vivo monitoring of the recruitment and activation of AP-1 by Arf1. Scientific Reports, 7, 7148.
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