3d models  (Oxford Instruments)

Journal: Cerebellum (London, England)

Article Title: Innovative 3D-Image Analysis of Cerebellar Vascularization Highlights Angiogenic Gene Dysregulations in a Murine Model of Apnea of Prematurity

doi: 10.1007/s12311-026-02006-1

Figure Lengend Snippet: Images illustrating the Imaris workflow developed for the vascular network modeling. A–I: Sequential workflow steps allowing the analysis of the cerebellar vascular network of a P4 mouse cerebellum on the Imaris software. From a 3D lightsheet acquisition (A) , the cerebellum is delineated (B) and a mask is created (C) . Within that selected volume, the cerebellar vascularization is segmented (D) , which allows the network visualization (E) and the separation of a deep and a superficial network (F) . Then the threshold of seedpoints is defined (G) , and thanks to the artificial intelligence module (AI), Imaris is able to discriminate “true” (blue) and “false” (red) seedpoints (H) , and “true” (blue) and “false” (red) segments (I) . AI: artificial intelligence; Px: postnatal day x

Article Snippet: One of the typically used software packages for 3D modelling is Imaris from Oxford Instruments Company.

Techniques: Software

Journal: Molecular Therapy Oncology

Article Title: An oncolytic herpesvirus expressing a CXCR4 antagonist interferes with glioblastoma cells’ stemness features and migration

doi: 10.1016/j.omton.2025.201083

Figure Lengend Snippet: oHSV/P2G impairs GB cell migration in a GB138 cell orthotopic xenograft in vivo model (A) Experimental settings of the orthotopic xenograft model. (B) to (G) correspond to Exp1 (short-term) results while (H) and (I) correspond to Exp 2 (long-term). (B) Size of the tumor evaluated by bioluminescence imaging on day 19. For technical reason, Exp 1 (B–G) was performed in two consecutive series, and two dataset were thus obtained (plain dot: first series, circle: second series). Statistical significance (for B–G) was determined in R (R script available in supplemental material) to verify whether any bias might result from differences between the two datasets. (C) Whole tumor volume measured on tumor 3D reconstruction (Imaris) of brains recovered on day 47. Despite the trend showing a reduction of the tumor volumes in the oHSV and oHSV/P2G mice, no statistical difference with the control group was observed (R script available in supplemental material). (D) Representative picture of the 3D reconstruction of the tumor mass (green) and of cells migrating (statistically fire-colored according to their distance to the central tumor mass) through the corpus callosum (gray). Scale bar represents 1 mm. 3D reconstruction of the tumor mass and of migrating cells is shown independently of the corpus callosum in the insert. Three individual images of that specific sample are shown on the right panels. Cancer cells (RFP + ) and the corpus callosum (manually annotated) appear in red and white dotted lines, respectively. Pictures of Imaris 3D modelization of all brains are shown in . A movie allowing to visualize the steps of the 3D reconstruction and to turn it at 360° is available in the . (E) Percentage of mice for which cells migrating through the corpus callosum were observed. (F and G) Volume of cells migrating through the corpus callosum (F) or ratio of migrating cells regarding the volume of the whole tumor (G). Boxplots represent the repartition of the measures carried out on 8 (PBS), 9 (oHSV), and 11 (oHSV/P2G) mice with whiskers representing the maximum and minimum values. (H and I) Long-term experiment (Exp 2). Whole-tumor volume of brains recovered on day 139 (H). Boxplots represent the repartition of the measures form 9 (PBS and oHSV) and 10 (oHSV/P2G) mice with whiskers representing the maximum and minimum values. Statistical significance was determined with a Kruskal-Wallis test after Shapiro-Wilk normality test. A presentative picture of one section is shown for each experimental group (I). Scale bar represents 2.5 mm (oHSV) or 1 mm (oHSV and oHSV/P2G).

Article Snippet: Tumor and corpus callosum 3D modeling were performed on Imaris Image Analysis software and allowed whole tumor volume and migrating cells volume measurements.

Techniques: Migration, In Vivo, Imaging, Control

Journal: Molecular Therapy Oncology

Article Title: An oncolytic herpesvirus expressing a CXCR4 antagonist interferes with glioblastoma cells’ stemness features and migration

doi: 10.1016/j.omton.2025.201083

Figure Lengend Snippet: oHSV/P2G impairs GB cell migration in a GB138 cell orthotopic xenograft in vivo model (A) Experimental settings of the orthotopic xenograft model. (B) to (G) correspond to Exp1 (short-term) results while (H) and (I) correspond to Exp 2 (long-term). (B) Size of the tumor evaluated by bioluminescence imaging on day 19. For technical reason, Exp 1 (B–G) was performed in two consecutive series, and two dataset were thus obtained (plain dot: first series, circle: second series). Statistical significance (for B–G) was determined in R (R script available in supplemental material) to verify whether any bias might result from differences between the two datasets. (C) Whole tumor volume measured on tumor 3D reconstruction (Imaris) of brains recovered on day 47. Despite the trend showing a reduction of the tumor volumes in the oHSV and oHSV/P2G mice, no statistical difference with the control group was observed (R script available in supplemental material). (D) Representative picture of the 3D reconstruction of the tumor mass (green) and of cells migrating (statistically fire-colored according to their distance to the central tumor mass) through the corpus callosum (gray). Scale bar represents 1 mm. 3D reconstruction of the tumor mass and of migrating cells is shown independently of the corpus callosum in the insert. Three individual images of that specific sample are shown on the right panels. Cancer cells (RFP + ) and the corpus callosum (manually annotated) appear in red and white dotted lines, respectively. Pictures of Imaris 3D modelization of all brains are shown in . A movie allowing to visualize the steps of the 3D reconstruction and to turn it at 360° is available in the . (E) Percentage of mice for which cells migrating through the corpus callosum were observed. (F and G) Volume of cells migrating through the corpus callosum (F) or ratio of migrating cells regarding the volume of the whole tumor (G). Boxplots represent the repartition of the measures carried out on 8 (PBS), 9 (oHSV), and 11 (oHSV/P2G) mice with whiskers representing the maximum and minimum values. (H and I) Long-term experiment (Exp 2). Whole-tumor volume of brains recovered on day 139 (H). Boxplots represent the repartition of the measures form 9 (PBS and oHSV) and 10 (oHSV/P2G) mice with whiskers representing the maximum and minimum values. Statistical significance was determined with a Kruskal-Wallis test after Shapiro-Wilk normality test. A presentative picture of one section is shown for each experimental group (I). Scale bar represents 2.5 mm (oHSV) or 1 mm (oHSV and oHSV/P2G).

Article Snippet: Pictures of Imaris 3D modelization of all brains are shown in .

Techniques: Migration, In Vivo, Imaging, Control

Journal: Translational Psychiatry

Article Title: NADPH alleviates LPS-induced neuropathology and depression-like behaviors by suppressing microglial inflammatory response

doi: 10.1038/s41398-025-03761-1

Figure Lengend Snippet: A qRT-PCR analysis IL-1β, IFN-γ, TNF-α, Aif1, CX3CR1, TREM2 relative gene expression level in the hippocampus of mouse (n = 5 mice per group, F (3, 12) = 12.51, F (3, 12) = 9.885, F (3, 12) = 22.82, F (3, 16) = 17.69, F (3, 16) = 8.891, F (3, 16) = 5.921). B Effects of NADPH treatment and LPS on oxidative stress products (SOD, GSH-PX, MDA) and CORT content in the hippocampus of mouse (n = 6 mice per group, F (3, 20) = 68.93, F (3, 20) = 50.99, F (3, 20) = 21.85, F (3, 20) = 10.52). Data are represented as means ± SEM. *P < 0.05, **P < 0.01, ***P < 0.005, ****P < 0.001 by one-way ANOVA followed by Tukey’s test. C Representative images of microglial Iba1 immunofluorescence staining and Imaris-reconstructed 3D models across experimental groups; Scale bar = 3 μm. D Semi-automated quantification of microglial activation. Representative bar graphs of Iba1 expression and 3D morphological measurements of microglia. Each symbol represents an individual microglial cell. Data were analyzed from 5 cells per group, derived from at least 5 mice (n = 5–6 per group, intensity mean, F (3, 20) = 11.69, soma volume, F (3, 16) = 10.52, dendrite length, F (3, 19) = 20.66, No. of dendrite branch Pts, F (3, 19) = 11.57, No. of segment, F (3, 19) = 13.31, No. of dendrite terminal Pts, F (3, 19) = 15.01). E Sholl analysis of microglia. (10–20μm, *, control vs LPS+NaCl, p <0.05. 18–22μm #, LPS+NaCl vs LPS + NADPH, p <0.05). Data are represented as means ± SEM. *P < 0.05, **P < 0.01, ***P < 0.005, ****P < 0.001 by one-way ANOVA followed by Tukey’s test.

Article Snippet: C Representative images of microglial Iba1 immunofluorescence staining and Imaris-reconstructed 3D models across experimental groups; Scale bar = 3 μm.

Techniques: Quantitative RT-PCR, Gene Expression, Immunofluorescence, Staining, Activation Assay, Expressing, Derivative Assay, Control