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zen image analysis module  (Carl Zeiss)


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    Structured Review

    Carl Zeiss zen image analysis module
    Zen Image Analysis Module, supplied by Carl Zeiss, used in various techniques. Bioz Stars score: 95/100, based on 194 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/image+analysis/ZEN+Module+Image+Analysis/pmc07875991-228-5-9
    Average 95 stars, based on 194 article reviews
    zen image analysis module - by Bioz Stars, 2026-10
    95/100 stars

    Images

    Related Articles

    Analysis:

    Article Title: ACL injury reprograms quadriceps myonuclear epigenetic and transcriptional signatures in mice
    Article Snippet: Immunofluorescence was visualized at 10 × or 20 × magnification (Plan-Apochromat 10x, NA: 0.45, air; Plan-Apochromat 20x, NA: 0.8, air) using a Zeiss M2 Axioimager with an automatic stage (Zeiss, Oberkochen, Germany). .. Image analysis for EU intensity and RNA-FISH was performed by a single assessor (TC or SGV) using Zeiss Zen software (v3.1), blinded to group allocation and injury status of the muscle. ..

    Article Title: Photobiomodulation Triggers M1/M2 Macrophage Polarization in Zymosan-Induced Acute Arthritis in Mice.
    Article Snippet: Objective: To investigate whether photobiomodulation (PBM) modulates macrophage polarization in zymosaninduced acute joint inflammation, promoting an M1 to M2 phenotype shift.. Methods: Mice received intraarticular zymosan and PBM (830 nm, 10 mW) at 3 and 30 J/cm2.. Euthanasia occurred at 24, 48, and 72 h. Polarization was assessed via mRNA levels and protein expression.

    Article Title: Complex interplay of neuronal and hormonal gut-brain responses to essential amino acid deficit.
    Article Snippet: INTRODUCTION: Animals maintain nutrient homeostasis by adjusting feeding behavior according to internal nutritional needs.. Protein intake is particularly critical because essential amino acids (EAAs) cannot be synthesized de novo and must be obtained from the diet.. When dietary protein becomes limiting, animals develop a compensatory appetite that prioritizes proteinrich foods or EAAcontaining foods.

    Article Title: The endo-lysosomal system drives lumen formation in a human epiblast model.
    Article Snippet: Surface rendering feature in Imaris (Oxford Instruments) was used to generate 3D surfaces (1.0μm surface level) and to measure lumenal sphericity in Fig. 10E. .. Lumenal circularity and roundness in Fig. 10F, G were measured from all optical sections with an open central lumen labeled by PODXL using Image Analysis module in ZEN (Zeiss). ..

    Article Title: Neurotensin stimulates androgen production by theca cells in the monkey ovarian follicle
    Article Snippet: Cells were washed, counterstained with Hoechst 33342, and visualized via fluorescence inverted microscopy (ZEISS, Oberkochen, Germany). .. Three fields were imaged per treatment, and pHrodo-Green fluorescent area was calculated per Hoechst-stained nuclei count using ZEN Blue software image analysis (Zeiss). ..

    Software:

    Article Title: ACL injury reprograms quadriceps myonuclear epigenetic and transcriptional signatures in mice
    Article Snippet: Immunofluorescence was visualized at 10 × or 20 × magnification (Plan-Apochromat 10x, NA: 0.45, air; Plan-Apochromat 20x, NA: 0.8, air) using a Zeiss M2 Axioimager with an automatic stage (Zeiss, Oberkochen, Germany). .. Image analysis for EU intensity and RNA-FISH was performed by a single assessor (TC or SGV) using Zeiss Zen software (v3.1), blinded to group allocation and injury status of the muscle. ..

    Article Title: Impact of Mutations in the NCAPG and MSTN Genes on Body Composition, Structural Properties of Skeletal Muscle, Its Fatty Acid Composition, and Meat Quality of Bulls from a Charolais × Holstein F 2 Cross.
    Article Snippet: .. A minimum of 300 muscle fibers per animal was measured using an image analysis system equipped with a Jenaval microscope (Carl Zeiss, Jena, Germany), an Altra20 CCD camera (OSIS, Münster, Germany), and the muscle fiber measurement module developed by MAS (Freiburg, Germany) in the Cellˆ software (OSIS). ..

    Article Title: Photobiomodulation Triggers M1/M2 Macrophage Polarization in Zymosan-Induced Acute Arthritis in Mice.
    Article Snippet: Objective: To investigate whether photobiomodulation (PBM) modulates macrophage polarization in zymosaninduced acute joint inflammation, promoting an M1 to M2 phenotype shift.. Methods: Mice received intraarticular zymosan and PBM (830 nm, 10 mW) at 3 and 30 J/cm2.. Euthanasia occurred at 24, 48, and 72 h. Polarization was assessed via mRNA levels and protein expression.

    Article Title: Impact of Mutations in the NCAPG and MSTN Genes on Body Composition, Structural Properties of Skeletal Muscle, Its Fatty Acid Composition, and Meat Quality of Bulls from a Charolais × Holstein F 2 Cross
    Article Snippet: .. A minimum of 300 muscle fibers per animal was measured using an image analysis system equipped with a Jenaval microscope (Carl Zeiss, Jena, Germany), an Altra20 CCD camera (OSIS, Münster, Germany), and the muscle fiber measurement module developed by MAS (Freiburg, Germany) in the Cell^ software (OSIS). ..

    Article Title: Complex interplay of neuronal and hormonal gut-brain responses to essential amino acid deficit.
    Article Snippet: INTRODUCTION: Animals maintain nutrient homeostasis by adjusting feeding behavior according to internal nutritional needs.. Protein intake is particularly critical because essential amino acids (EAAs) cannot be synthesized de novo and must be obtained from the diet.. When dietary protein becomes limiting, animals develop a compensatory appetite that prioritizes proteinrich foods or EAAcontaining foods.

    Article Title: Mucoadhesive Chitosome-Based Buccal Delivery of Goat Placenta-Derived Bioactive Macromolecules: Effects on 5-Fluorouracil-Induced Gingival Fibroblast Injury
    Article Snippet: .. Fluorescence distribution throughout the tissue was semi-quantitatively analyzed using ZEISS ZEN software (version 2.3 SP1), which generated fluorescence intensity profiles along the central horizontal axis of each image. ..

    Article Title: Neurotensin stimulates androgen production by theca cells in the monkey ovarian follicle
    Article Snippet: Cells were washed, counterstained with Hoechst 33342, and visualized via fluorescence inverted microscopy (ZEISS, Oberkochen, Germany). .. Three fields were imaged per treatment, and pHrodo-Green fluorescent area was calculated per Hoechst-stained nuclei count using ZEN Blue software image analysis (Zeiss). ..

    Microscopy:

    Article Title: Impact of Mutations in the NCAPG and MSTN Genes on Body Composition, Structural Properties of Skeletal Muscle, Its Fatty Acid Composition, and Meat Quality of Bulls from a Charolais × Holstein F 2 Cross.
    Article Snippet: .. A minimum of 300 muscle fibers per animal was measured using an image analysis system equipped with a Jenaval microscope (Carl Zeiss, Jena, Germany), an Altra20 CCD camera (OSIS, Münster, Germany), and the muscle fiber measurement module developed by MAS (Freiburg, Germany) in the Cellˆ software (OSIS). ..

    Article Title: Impact of Mutations in the NCAPG and MSTN Genes on Body Composition, Structural Properties of Skeletal Muscle, Its Fatty Acid Composition, and Meat Quality of Bulls from a Charolais × Holstein F 2 Cross
    Article Snippet: .. A minimum of 300 muscle fibers per animal was measured using an image analysis system equipped with a Jenaval microscope (Carl Zeiss, Jena, Germany), an Altra20 CCD camera (OSIS, Münster, Germany), and the muscle fiber measurement module developed by MAS (Freiburg, Germany) in the Cell^ software (OSIS). ..

    Labeling:

    Article Title: The endo-lysosomal system drives lumen formation in a human epiblast model.
    Article Snippet: Surface rendering feature in Imaris (Oxford Instruments) was used to generate 3D surfaces (1.0μm surface level) and to measure lumenal sphericity in Fig. 10E. .. Lumenal circularity and roundness in Fig. 10F, G were measured from all optical sections with an open central lumen labeled by PODXL using Image Analysis module in ZEN (Zeiss). ..

    Fluorescence:

    Article Title: Mucoadhesive Chitosome-Based Buccal Delivery of Goat Placenta-Derived Bioactive Macromolecules: Effects on 5-Fluorouracil-Induced Gingival Fibroblast Injury
    Article Snippet: .. Fluorescence distribution throughout the tissue was semi-quantitatively analyzed using ZEISS ZEN software (version 2.3 SP1), which generated fluorescence intensity profiles along the central horizontal axis of each image. ..

    Tissue:

    Article Title: Mucoadhesive Chitosome-Based Buccal Delivery of Goat Placenta-Derived Bioactive Macromolecules: Effects on 5-Fluorouracil-Induced Gingival Fibroblast Injury
    Article Snippet: .. Fluorescence distribution throughout the tissue was semi-quantitatively analyzed using ZEISS ZEN software (version 2.3 SP1), which generated fluorescence intensity profiles along the central horizontal axis of each image. ..

    Generated:

    Article Title: Mucoadhesive Chitosome-Based Buccal Delivery of Goat Placenta-Derived Bioactive Macromolecules: Effects on 5-Fluorouracil-Induced Gingival Fibroblast Injury
    Article Snippet: .. Fluorescence distribution throughout the tissue was semi-quantitatively analyzed using ZEISS ZEN software (version 2.3 SP1), which generated fluorescence intensity profiles along the central horizontal axis of each image. ..



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    Image Search Results


    (A) Detection of SARS-CoV-2 infected cells using high-content imaging under control conditions. Fluorescent signals: green (anti-SARS-CoV NP mAb), blue (Hoechst). (B) Representative flow cytometry analysis plots showing NP+ cells. (C) Measurement of fluorescent intensity in NP+ cells. (D) Percentage of infected MSCs. (E) The supernatants of infected MSCs were collected and titrated on Vero-E6/TMPRSS2 cells to measure infectious viral particle production using the focus-forming assay. (F) After RNA extraction from infected MSCs, the expression of IDO1 was examined using real-time PCR. The graph displays the expression of IDO1 normalized to GAPDH , with the mock group serving as the control. Data are represented as means ± SEM from three independent biological replicates. For , the Delta condition was available from only two independent donors and was therefore presented descriptively and excluded from the statistical analysis. Statistical comparisons among the remaining groups were performed using one-way ANOVA followed by Tukey’s multiple-comparisons test. One-way ANOVA showed a significant overall difference among groups, F(2, 6) = 6.794, P = 0.0287. * P < 0.05, ** P < 0.01, *** P = 0.0001, **** P < 0.0001.

    Journal: PLOS One

    Article Title: Omicron SARS-CoV-2 shows NRP1-linked susceptibility in adipose-derived MSCs and alters primitive cord blood CD34⁺ HSPCs

    doi: 10.1371/journal.pone.0360439

    Figure Lengend Snippet: (A) Detection of SARS-CoV-2 infected cells using high-content imaging under control conditions. Fluorescent signals: green (anti-SARS-CoV NP mAb), blue (Hoechst). (B) Representative flow cytometry analysis plots showing NP+ cells. (C) Measurement of fluorescent intensity in NP+ cells. (D) Percentage of infected MSCs. (E) The supernatants of infected MSCs were collected and titrated on Vero-E6/TMPRSS2 cells to measure infectious viral particle production using the focus-forming assay. (F) After RNA extraction from infected MSCs, the expression of IDO1 was examined using real-time PCR. The graph displays the expression of IDO1 normalized to GAPDH , with the mock group serving as the control. Data are represented as means ± SEM from three independent biological replicates. For , the Delta condition was available from only two independent donors and was therefore presented descriptively and excluded from the statistical analysis. Statistical comparisons among the remaining groups were performed using one-way ANOVA followed by Tukey’s multiple-comparisons test. One-way ANOVA showed a significant overall difference among groups, F(2, 6) = 6.794, P = 0.0287. * P < 0.05, ** P < 0.01, *** P = 0.0001, **** P < 0.0001.

    Article Snippet: The Operetta high-content imaging system (PerkinElmer) was used to detect and analyze the fluorescent signals.

    Techniques: Infection, Imaging, Control, Flow Cytometry, Analysis, Focus Forming Assay, RNA Extraction, Expressing, Real-time Polymerase Chain Reaction

    (A) Representative western blot depicting the expression of NRP1 in AD-MSCs (No siRNA), cells transfected with non-targeting siRNA (siControl), or siNRP1 for 24 hours. β-actin was used as a loading control. (B) Graph displaying the quantification of NRP1 normalized to β-actin (n = 3). This experiment represents three independent biological replications. Statistical analysis was performed using one-way ANOVA followed by Tukey’s multiple comparisons test. (C) Transfected cells were visualized using high-content imaging. Fluorescent signals: green for anti-NRP1 mAb, blue for Hoechst. (D) Percentage of NRP1-expressing cells normalized to cells transfected with siControl. Data are presented as mean ± SEM from three independent experiments. Statistical analysis was conducted using a paired t-test. Next, siRNA-transfected cells were infected with different variants of SARS-CoV-2. (E) SARS-CoV-2-infected cells were detected using high-content imaging. Fluorescent signals: green for anti-SARS-CoV NP mAb, blue for Hoechst. (F) The fluorescent intensity of NP+ cells was measured. All data represent three independent experiments. Statistical analysis among each group of variant was performed using an unpaired t-test. * P < 0.05, ** P < 0.01, *** P = 0.0001, **** P < 0.0001.

    Journal: PLOS One

    Article Title: Omicron SARS-CoV-2 shows NRP1-linked susceptibility in adipose-derived MSCs and alters primitive cord blood CD34⁺ HSPCs

    doi: 10.1371/journal.pone.0360439

    Figure Lengend Snippet: (A) Representative western blot depicting the expression of NRP1 in AD-MSCs (No siRNA), cells transfected with non-targeting siRNA (siControl), or siNRP1 for 24 hours. β-actin was used as a loading control. (B) Graph displaying the quantification of NRP1 normalized to β-actin (n = 3). This experiment represents three independent biological replications. Statistical analysis was performed using one-way ANOVA followed by Tukey’s multiple comparisons test. (C) Transfected cells were visualized using high-content imaging. Fluorescent signals: green for anti-NRP1 mAb, blue for Hoechst. (D) Percentage of NRP1-expressing cells normalized to cells transfected with siControl. Data are presented as mean ± SEM from three independent experiments. Statistical analysis was conducted using a paired t-test. Next, siRNA-transfected cells were infected with different variants of SARS-CoV-2. (E) SARS-CoV-2-infected cells were detected using high-content imaging. Fluorescent signals: green for anti-SARS-CoV NP mAb, blue for Hoechst. (F) The fluorescent intensity of NP+ cells was measured. All data represent three independent experiments. Statistical analysis among each group of variant was performed using an unpaired t-test. * P < 0.05, ** P < 0.01, *** P = 0.0001, **** P < 0.0001.

    Article Snippet: The Operetta high-content imaging system (PerkinElmer) was used to detect and analyze the fluorescent signals.

    Techniques: Western Blot, Expressing, Transfection, Control, Analysis, Imaging, Infection, Variant Assay

    ART6043 potentiates PARP inhibition in vitro . A, Representative CTG assay combination matrix for DLD-1 BRCA2 −/− (left) and DLD-1 wild-type (right) cells treated with titrated ART6043 and talazoparib for 14 days. Intensity of blue color indicates the level of synergy. % Control indicates relative viability. B, Representative IncuCyte growth curves for DLD-1 BRCA2 −/− cells treated with ART6043 or talazoparib as monotherapy or in combination at the indicated doses for 14 days. C, As for A but using olaparib instead of talazoparib. D, As for B but using olaparib instead of talazoparib. ART6043 concentrations represent free drug in tissue culture medium.

    Journal: Clinical Cancer Research

    Article Title: The Pharmacologic Profile of ART6043, a First-in-Class Clinical DNA Polymerase Theta Polymerase Domain Inhibitor Potentiating PARP Inhibitor Efficacy

    doi: 10.1158/1078-0432.CCR-26-0493

    Figure Lengend Snippet: ART6043 potentiates PARP inhibition in vitro . A, Representative CTG assay combination matrix for DLD-1 BRCA2 −/− (left) and DLD-1 wild-type (right) cells treated with titrated ART6043 and talazoparib for 14 days. Intensity of blue color indicates the level of synergy. % Control indicates relative viability. B, Representative IncuCyte growth curves for DLD-1 BRCA2 −/− cells treated with ART6043 or talazoparib as monotherapy or in combination at the indicated doses for 14 days. C, As for A but using olaparib instead of talazoparib. D, As for B but using olaparib instead of talazoparib. ART6043 concentrations represent free drug in tissue culture medium.

    Article Snippet: Cells were imaged on the IncuCyte Live-Cell Imaging System (Essen Biosciences, RRID:SCR_023147).

    Techniques: Inhibition, In Vitro, CTG Assay, Control, Tissue

    CLSP-1025 demonstrates functional activity in various cellular systems including cell cocultures and patient-derived organoids. A, CLSP-1025–mediated cytotoxicity in cocultures of PBMCs and HLA-A*02:01 + –p53 R175H+ tumor cells. Cytotoxicity is reported as the percent tumor-cell death after a 96-hour coculture (mean ± SEM; n = 2). B, HLA-A*02:01 surface expression on p53 R175H+ TYK-nu cells after 72 hours of IFN-γ treatment, measured by geometric mean fluorescence intensity (gMFI) via flow cytometry. Data shown as mean; n = 3 technical replicates. C, CLSP-1025–mediated cytotoxicity in PBMC cocultures with TYK-nu cells with or without IFN-γ pretreatment, shown as percent tumor-cell death (mean ± SEM; n = 3 technical replicates). D–E, CLSP-1025–mediated cytotoxicity and IFN-γ secretion in PBMC cocultures with HLA-A*02:01 + –p53 R175H + adenocarcinoma organoids, measured by percent tumor-cell death and MSD, respectively [mean ± standard deviation (SD); n = 1 PBMC donor and technical duplicates for IFN-γ measurements]. F and G, CLSP-1025–mediated cytotoxicity and IFN-γ secretion in PBMC cocultures with HLA-A*02:01 + –p53 WT adenocarcinoma organoids. H, CLSP-1025–mediated killing of GFP + KLE cells when cocultured with isolated CD4 + , CD8 + , or bulk CD3 + T cells. GFP signal was quantified in real time using Incucyte and plotted as normalized fluorescence units [GFP fluorescence units (GFU) × μm 2 /image]. Data shown as mean ± SD; n = 2 technical replicates.

    Journal: Clinical Cancer Research

    Article Title: Preclinical Characterization of CLSP-1025, a First-in-Class, Mutation-Specific T-Cell Engager Targeting a Neoantigen Derived from a Common p53 Mutation

    doi: 10.1158/1078-0432.CCR-26-1252

    Figure Lengend Snippet: CLSP-1025 demonstrates functional activity in various cellular systems including cell cocultures and patient-derived organoids. A, CLSP-1025–mediated cytotoxicity in cocultures of PBMCs and HLA-A*02:01 + –p53 R175H+ tumor cells. Cytotoxicity is reported as the percent tumor-cell death after a 96-hour coculture (mean ± SEM; n = 2). B, HLA-A*02:01 surface expression on p53 R175H+ TYK-nu cells after 72 hours of IFN-γ treatment, measured by geometric mean fluorescence intensity (gMFI) via flow cytometry. Data shown as mean; n = 3 technical replicates. C, CLSP-1025–mediated cytotoxicity in PBMC cocultures with TYK-nu cells with or without IFN-γ pretreatment, shown as percent tumor-cell death (mean ± SEM; n = 3 technical replicates). D–E, CLSP-1025–mediated cytotoxicity and IFN-γ secretion in PBMC cocultures with HLA-A*02:01 + –p53 R175H + adenocarcinoma organoids, measured by percent tumor-cell death and MSD, respectively [mean ± standard deviation (SD); n = 1 PBMC donor and technical duplicates for IFN-γ measurements]. F and G, CLSP-1025–mediated cytotoxicity and IFN-γ secretion in PBMC cocultures with HLA-A*02:01 + –p53 WT adenocarcinoma organoids. H, CLSP-1025–mediated killing of GFP + KLE cells when cocultured with isolated CD4 + , CD8 + , or bulk CD3 + T cells. GFP signal was quantified in real time using Incucyte and plotted as normalized fluorescence units [GFP fluorescence units (GFU) × μm 2 /image]. Data shown as mean ± SD; n = 2 technical replicates.

    Article Snippet: The plates were incubated in an Incucyte S3 imager (Sartorius: Incucyte S3 live-cell analysis system, RRID: SCR_023147) for 160 hours and whole-well images captured every 4 hours.

    Techniques: Functional Assay, Activity Assay, Patient-Derived Organoids, Expressing, Fluorescence, Flow Cytometry, Organoids, Standard Deviation, Isolation