Skyscan ctan software

Manufactured by Bruker

Sourced in Belgium

SkyScan CTAn software is a comprehensive and user-friendly tool for the analysis of 3D data from microCT and nanoCT systems. It provides a wide range of analytical functions, including image processing, quantification, and visualization, to assist researchers in extracting valuable information from their volumetric datasets.

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Lab products found in correlation

Skyscan nrecon platform, by Bruker (2 mentions) Skyscan 1176 micro ct system, by Bruker (2 mentions) Skyscan 1176, by Bruker (2 mentions) Skyscan nrecon software, by Bruker (2 mentions) Skysacn 1276, by Bruker (1 mentions) Nrecon software interface, by Bruker (1 mentions) μct40, by Scanco (1 mentions) Skyscan nrecon, by Bruker (1 mentions) Skyscan 1178, by Bruker (1 mentions) Skyscan nreconc software, by Bruker (1 mentions) Skyscan 1174, by Bruker (1 mentions)

8 protocols using skyscan ctan software

Micro-CT Analysis of Distal Femur

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Micro-CT analysis (SkySacn 1276, Bruker, Kontich, Belgium) was utilized to scan structural changes in the distal femur of mice. The scanned images were reconstructed using the SkyScan NRecon program and analyzed using SkyScan CTAn software (version 1.17.7.2, Bruker, Kontich, Belgium). The measured volume of the distal femur starting at 80 µm from the lower end of the growth plate and extending across 150 cross-sections (1.2 mm high). Bone morphometric parameters, including trabecular bone mineral density (BMD, g/cm³), trabecular bone volume fraction (BV/TV, %), trabecular number (Tb.N, mm), trabecular separation (Tb.Sp, mm), and trabecular thickness (Tb.Th, mm), were calculated.

Shim K.S., Hwang Y.H., Jang S.A., Kim T, & Ha H. (2020). Water Extract of Lysimachia christinae Inhibits Trabecular Bone Loss and Fat Accumulation in Ovariectomized Mice. Nutrients, 12(7), 1927.

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Micro-CT Imaging of Mouse Skulls

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Mice skulls immobilized with 4% PFA were scanned at 50 kV and 500 μA using the Skyscan 1176 micro-CT system (Bruker, USA), with additional parameters including a 9 μm pixel size, a 0.5 mm AI filter, and a 180-degree rotation step. The SkyScan NRecon platform was utilized to reconstruct three-dimensional (3D) images, which were then analyzed using SkyScan CTAn software (Bruker).

Gan K., Lian H., Yang T., Huang J., Chen J., Su Y., Zhao J., Xu J, & Liu Q. (2024). Periplogenin attenuates LPS-mediated inflammatory osteolysis through the suppression of osteoclastogenesis via reducing the NF-κB and MAPK signaling pathways. Cell Death Discovery, 10, 86.

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3D Quantification of Bone Regeneration in Chick and Ovine Defect Models

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3D analysis of PFA fixed organotypic cultured chick femurs/hydrogels, and chick femur defects/hydrogels with Stro-4+ cells were performed using a SkyScan 1176 scanning system (Bruker μCT, Kontich). Samples were scanned at 18 μm resolution and reconstructed using NRecon software interface (v.1.6.4.6, Bruker μCT, Kontich). Reconstructed femurs and hydrogels were analysed using CT Analyser (v.1.13.2.1+, Bruker μCT, Kontich) and images generated using CT Vox 3.0.
For the ovine tibial segmental defect model, fixed bone samples were scanned at 18 μm resolution using a Scanco μCT 40 micro-CT, files were converted to .ISQ format and analysed in combination with control data at the University of Southampton using ctAn software (Bruker μCT, Kontich). The defect region was identified using the drill holes nearest to the defect boundary as landmarks, with the defect universally defined 0.5 cm proximal and distal to the respective drill holes. Thresholding was set uniformly for all analysis, advised on an Otsu analysis. The defect region was analysed in four segments, proximal, middle, distal and whole for bone volume (BV mm³). Only values for the whole defect region were included due to the absence of new bone formation demonstrated in test groups. Bone volume was calculated using Bruker Skyscan® ctAn software.

Black C., Kanczler J.M., de Andrés M.C., White L.J., Savi F.M., Bas O., Saifzadeh S., Henkel J., Zannettino A., Gronthos S., Woodruff M.A., Hutmacher D.W, & Oreffo R.O. (2020). Characterisation and evaluation of the regenerative capacity of Stro-4+ enriched bone marrow mesenchymal stromal cells using bovine extracellular matrix hydrogel and a novel biocompatible melt electro-written medical-grade polycaprolactone scaffold. Biomaterials, 247, 119998.

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Calvaria Micro-CT Analysis of Titanium Particles

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The calvaria were fixed with 4% PFA. Titanium particles were removed from calvaria before micro-CT scanning to avoid metal artifacts. The fibrous membranes along with the titanium particles were gently peeled from the surface of the calvaria using a periosteum detacher. A Skyscan 1176 micro-CT system (Bruker, Billerica, MA, United States) was used to scan the calvaria at a voltage of 80 kV and a current of 80 μA with an isometric pixel size of 9 mm. The SkyScan NRecon platform was used to rebuild three-dimensional (3-D) pictures, then subjected to examination utilizing SkyScan CTAn software (Bruker). A region of interest (ROI) of square shape surrounding the midline sutures of the calvaria was chosen for additional quantitative and qualitative investigations. As previously indicated, the criteria under consideration comprise the percentage of bone volume/tissue volume (BV/TV), the percentage of total porosity, and the number of porosities (Bouxsein et al., 2010 (link)).

Huang L., Chen W., Wei L., Su Y., Liang J., Lian H., Wang H., Long F., Yang F., Gao S., Tan Z., Xu J., Zhao J, & Liu Q. (2022). Lonafarnib Inhibits Farnesyltransferase via Suppressing ERK Signaling Pathway to Prevent Osteoclastogenesis in Titanium Particle-Induced Osteolysis. Frontiers in Pharmacology, 13, 848152.

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Micro-CT Analysis of Mouse Cranial Bone

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The muscular tissue was excised with a knife after the mouse skull was initially fixed with 4% PFA. A Micro‐CT scan was used to scan the mouse's whole skull (SkyScan1176, Bruker). The scanning parameters were as follows: SkyScan NRecon is used with a 50 kV source voltage, a 500 μA source current, a 9 μm pixel size, a 0.5 mm AI filter, and a rotating step of 180 degrees. The 3D pictures were reconstructed with the SkyScan NRecon platform and evaluated with the SkyScan CTAn software (Bruker). For subsequent quantitative and qualitative research, a square region of interest (ROI) surrounding the sagittal suture of the skull was determined. The bone volume to tissue volume ratio (BV/TV) and bone resorption area ratio were calculated.

Xie X., Chen W., Xu M., Chen J., Yang T., Wang C., Su Y., Zhao J., Xu J, & Liu Q. (2023). IKK/NF‐κB and ROS signal axes are involved in Tenacissoside H mediated inhibitory effects on LPS‐induced inflammatory osteolysis. Cell Proliferation, 57(1), e13535.

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Micro-CT Analysis of Calvarial Bone

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The fixed calvarial bones were scanned and analyzed using a high-resolution micro-CT scanner (SkyScan 1178; Bruker, Aartselaar, Belgium) at an isometric voxel resolution of 18 μm, X-ray voltage of 80 kV, and current of 100 μA. Three-dimensional reconstructions of the calvarial bones were carried out using SkyScan NRecon software with the cone beam volumetric algorithm (Bruker). A square volume of interest (VOI; 3 × 3 × 1 mm) centered around the midline suture was selected for quantitative bone morphometric analyses of percentage of bone volume to tissue volume (BV/TV, %), the number of porosities, and percentage of total osteolytic lesions for each sample using SkyScan CTan software (Bruker).

Li Y.X., Chen F.C., Liu T., Cai Z.P., Chen K., Tang G.X., Huang J.S., Liu X.G., Huang J.J., Wang P., Liang Y.W, & Huang L. (2020). Pantoprazole (PPZ) Inhibits RANKL-Induced Osteoclast Formation and Function In Vitro and Prevents Lipopolysaccharide- (LPS-) Induced Inflammatory Calvarial Bone Loss In Vivo. Stem Cells International, 2020, 8829212.

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Micro-CT analysis of maxillary molar bone density

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The samples were fixed with 4% paraformaldehyde (PFA; Merck, Kenilworth, NJ, USA) and scanned by micro-computed tomography (micro-CT, SkyScan 1174, Bruker, Kontich, Belgium) as described previously [34 (link)]. The scanning parameters were set to 6.5 μm voxel size, 50 kVp, 800 μA, 1 mm aluminum filter, angular rotation step 0.7°, 180° scanning, 261 projections, and an exposure time of 4 s with a total scan duration of 37 min. Transmission images were reconstructed using SkyScan NReconc software (Bruker). To measure the cross-sectional volumetric BMD, the region of interest (100 μm square area, ROI) adjacent to the furcation and mesial areas of the root socket of the first maxillary molar was measured volumetrically through 25 serial sections from the sagittal data set by SkyScan CTan software (Bruker).

Tanaka Y., Aung K.T., Ono M., Mikai A., Dang A.T., Hara E.S., Tosa I., Ishibashi K., Ono-Kimura A., Nawachi K., Kuboki T, & Oohashi T. (2021). Suppression of Bone Necrosis around Tooth Extraction Socket in a MRONJ-like Mouse Model by E-rhBMP-2 Containing Artificial Bone Graft Administration. International Journal of Molecular Sciences, 22(23), 12823.

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Microstructural Bone Analysis via μCT

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Fixed calvarial and long bone samples were subjected to μCT analysis using the Skyscan 1072 micro-CT system (Bruker, Billerica, MA, USA). Images were acquired with the scanning parameters set at a current of 80 mA and voltage of 70 kV with an isometric pixel size of 9 mm. Three-dimensional reconstructions of the bone tissues were carried out using the SkyScan NRecon software and morphometric analysis conducted using the SkyScan CTAn software (Bruker). For the long bones, a square region of interest 0.5 mm below the growth plate was defined for further quantitative analyses. For calvarial bones, a square region of interest around the midline suture was used for quantitative measurements. Bone morphometric parameters analyzed include bone volume/tissue volume (BV/TV), percentage of total porosity, mean trabecular thickness (Tb.Th, mm), mean trabecular separation (Tb.Sp, mm), and mean trabecular number (Tb.N, mm -1 ).

Jin K., Zheng L., Ye L., Xie Z., Gao J., Lou C., Pan W., Pan B., Liu S., Chen Z, & He D. (2021). Chicago sky blue 6B (CSB6B), an allosteric inhibitor of macrophage migration inhibitory factor (MIF), suppresses osteoclastogenesis and promotes osteogenesis through the inhibition of the NF-κB signaling pathway. Biochemical pharmacology, 192.

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