Welcome to the Amira-Avizo Software Use Case Gallery

Below you will find a collection of use cases of our 3D data visualization and analysis software. These use cases include scientific publications, articles, papers, posters, presentations or even videos that show how Amira-Avizo Software is used to address various scientific and industrial research topics.

Use the Domain selector to filter by main application area, and use the Search box to enter keywords related to specific topics you are interested in.

Tracking tendon fibers to their insertion – a 3D analysis of the Achilles tendon enthesis in mice

Tracking tendon fibers to their insertion – a 3D analysis of the Achilles tendon enthesis in mice

Tendon insertions to bone are heavily loaded transitions between soft and hard tissues. The fiber courses in the tendon have profound effects on the distribution of stress along and across the insertion. We tracked fibers of the Achilles tendon in mice in micro-computed tomographies and extracted virtual transversal sections. The fiber tracks and shapes were analyzed from a position in the free tendon to the insertion with regard to their mechanical consequences. The fiber number was found to... Read more

Julian Sartori, Heiko Stark

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Impact of nanopore structure on coal strength

Impact of nanopore structure on coal strength

In China’s energy consumption structure, coal is the main energy source, accounting for about 60% of primary energy consumption. Coal is a porous medium with complex pore structures. Nanopore structure in coal particle is the basic underlying factor driving coal particle strength. A better knowledge of nanopore structure – coal particle strength correlation is of great significance for coal mining and other fields of engineering problems.

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Yixin Zhao - Liang Yuan - QuanXue

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Three-dimensional characterization of typical inclusions in steel

Three-dimensional characterization of typical inclusions in steel

The non-metallic inclusions are mostly harmful to the propertiesof the steel products. The effective characterization of the size, morphology, and distribution of the inclusions in steel is a key issue to remove and control the inclusions in the Read more

Zhiqiang Shang, Tao Li; Shufeng Yang, Jianchuan Yan, Han Guod

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Influence of Isothermal Holding on the Microstructure and Mechanical Properties of Electron Beam Welded Dissimilar Inconel 718/ATI 718Plus® Joint

Influence of Isothermal Holding on the Microstructure and Mechanical Properties of Electron Beam Welded Dissimilar Inconel 718/ATI 718Plus® Joint

Inconel 718 (IN718) is the most popular precipitation-strengthened nickel-based superalloy introduced by the Huntington Alloys Division of INCO in 1959 (Ref Read more

Oskar Dziuba, Grzegorz Cempura, Agnieszka Wusatowska-Sarnek & Adam Kruk

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X-ray Micro-Computed Tomography of Polymer Electrolyte Fuel Cells: What is the Representative Elementary Area?

X-ray Micro-Computed Tomography of Polymer Electrolyte Fuel Cells: What is the Representative Elementary Area?

With the growing use of X-ray computed tomography (X-ray CT) datasets for modelling of transport properties, comes the need to define the representative elementary volume (REV) if considering three dimensions or the representative elementary area (REA) if considering two dimensions. The resolution used for imaging must be suited to the features of interest in the sample and the region-of-interest must be sufficiently large to capture key information. Polymer electrolyte fuel cells have a hier... Read more

Jennifer Hack et al 2020 J. Electrochem.

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A Neutron Tomographic Analysis of Plated Silver Coins from Ancient Greece Official or Illegal?

A Neutron Tomographic Analysis of Plated Silver Coins from Ancient Greece Official or Illegal?

In the 6th century BC different techniques of coin manufacture were employed by mints in mainland Greece and in the Greek colonies in Southern Italy. In Greece these techniques were evidently derived from the Lydians and consisted in striking a piece of cast metal of predetermined weight (a ‘blank’ or flan) between two engraved dies made of hardened bronze. Colonies in Magna Graecia, however, uniquely developed another set of minting techniques to produce what today is called incuse coina... Read more

Scott Olsen, Filomena Silvemini, Ulf Garbe, Max Avdeev, Joel Davis, Vladimir Luzin, Ken Sheedy

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Microstructure Characterization by X-Ray Computed Tomography of C/C-SiC Ceramic Composites Fabricated with Different Carbon Fiber Architectures

Microstructure Characterization by X-Ray Computed Tomography of C/C-SiC Ceramic Composites Fabricated with Different Carbon Fiber Architectures

The microstructure morphologies have been characterized by high resolution laboratory X-ray computed tomography in Carbon Fiber Reinforced Carbon and Silicon Carbide (C/C-SiC) ceramic composites fabricated by Gaseous Silicon Infiltration (GSI) from C/C preforms of three different architectures: 3D stitched cloth fabric; 3D orthogonal woven fabric; and needled short-cut felt. Each composites’ microstructure was influenced by the structure of the C/C preform. By incorporating tomography with ... Read more

Fan Wan, Talha, J. Pirzada, Rongjun Liu, Yanfei Wang, Changrui Zhang, Thomas James Marrow

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Masseter muscle atrophy impairs bone quality of the mandibular condyle but not the alveolar process early after induction

Masseter muscle atrophy impairs bone quality of the mandibular condyle but not the alveolar process early after induction

Masseter muscle function influences mandibular bone homeostasis. As previously reported, bone resorption markers increased in the mouse mandibular condyle two days after masseter paralysis induced with botulinum toxin type A (BoNTA), followed by local bone loss.
This study aimed to evaluate the bone quality of both the mandibular condyle and alveolar process in the mandible of adult mice during the early stage of a BoNTA‐induced masseter muscle atrophy, using a combined 3D histomorpho... Read more

Julián Balanta‐Melo, María Angélica Torres‐Quintana, Maximilian Bemmann, Carolina Vega, Constanza González, Kornelius Kupczik, Viviana Toro‐Ibacache, Sonja Buvinic

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Three-dimensional assessment of enamel and dentine in mouse molar teeth during masseter muscle hypofunction

Three-dimensional assessment of enamel and dentine in mouse molar teeth during masseter muscle hypofunction

Mouse molar is a widely used model for teeth development. However, the effect of masticatory function on enamel and dentine in adult individuals remains poorly understood. As reported, the unilateral masseter hypofunction induced by botulinum toxin type A (BoNTA) resulted in mandibular bone damage and signs of unilateral chewing in adult mice.

Enamel volume from treated side resulted unchanged after 2 weeks of unilateral masseter hypofunction. No differences for enamel volume were fou... Read more

Julián BALANTA-MELO, Maximilian BEMMANN, Viviana TORO-IBACACHE, Kornelius KUPCZIK, Sonja BUVINIC

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Utilization of Recycled Material Sources for Wood-Polypropylene Composites: Effect on Internal Composite Structure, Particle Characteristics and Physico-Mechanical Properties

Utilization of Recycled Material Sources for Wood-Polypropylene Composites: Effect on Internal Composite Structure, Particle Characteristics and Physico-Mechanical Properties

In this study, various wood material sources were used for the manufacture of wood-polymer composites (WPC). The materials were categorised as virgin wood particles (VWP), reprocessed WPC particles (RWP) and recycled thermoset composite particles (RCP) and derived from two virgin wood sources, three-layer particle boards, medium-density fibre boards (MDF) boards,or two different wood/polypropylene composites. All produced wood-polypropylene compounds contained 60% wood material and were manu... Read more

Kim Christian Krause, D, Philipp Sauerbier, Tim Koddenberg and Andreas Krause

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The effect of wetting area in carbon paper electrode on the performance of vanadium redox flow batteries: A three-dimensional lattice Boltzmann study

The effect of wetting area in carbon paper electrode on the performance of vanadium redox flow batteries: A three-dimensional lattice Boltzmann study

The vanadium redox flow battery (VRFB) has emerged as a promising technology for large-scale storage of intermittent power generated from renewable energy sources due to its advantages such as scalability, high energy efficiency and low cost. In the current study, a three-dimensional(3D) Lattice Boltzmann model is developed to simulate the transport mechanisms of electrolyte flow, species and charge in the vanadium redox flow battery at the micro pore scale. An electrochemical model using the... Read more

Duo Zhang, Qiong Cai, Oluwadamilola O.Taiwo, Vladimir Yufit, Nigel P.Brandon, Sai Gu

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High-resolution mapping of brain vasculature and its impairment in the hippocampus of Alzheimer’s disease mice

High-resolution mapping of brain vasculature and its impairment in the hippocampus of Alzheimer’s disease mice

Accumulating evidence indicates the critical importance of cerebrovascular dysfunction in the pathogenesis of Alzheimer’s disease (AD). However, systematic comparative studies on the precise brain vasculature of wild-type and AD model mice are still rare. Using an image optimization method for analyzing Micro-Optical Sectioning Tomography (MOST) data, we generated cross-scale whole-brain 3D atlases that cover the entire vascular system from large vessels down to smallest capillaries at ... Read more

Xiaochuan Zhang, Xianzhen Yin, Jingjing Zhang, Anan Li, Hui Gong, Qingming Luo, Haiyan Zhang, Zhaobing Gao, Hualiang Jiang

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A detailed canine brain label map for neuroimaging analysis

A detailed canine brain label map for neuroimaging analysis

Dogs have recently become an important model species for comparative social and cognitive neuroscience. Brain template-related label maps are essential for functional magnetic resonance imaging (fMRI) data analysis, to localize neural responses. In this study, we present a detailed, individual-based, T1-weighted MRI-based brain label map used in dog neuroimaging analysis. Methods: A typical, medium-headed dog (a 7.5-year-old
male Golden Retriever) was selected from a cohort of ... Read more

Czeibert Kálmán, Andics Attila, Petneházy Örs, Kubinyi Enikő, Kálmán Czeibert

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Variation of 3D outer and inner crown morphology in modern human mandibular premolars

Variation of 3D outer and inner crown morphology in modern human mandibular premolars

This study explores the outer and inner crown of lower third and fourth premolars (P3, P4) by analyzing the morphological variation among diverse modern human groups.

We studied three‐dimensional models of the outer enamel surface and the enamel–dentine junction (EDJ) from μCT datasets of 77 recent humans using both an assessment of seven nonmetric traits and a standard geometric morphometric (GM) analysis. For the latter, the dental crown was represented by ... Read more

Viktoria A. Krenn, Cinzia Fornai, Lisa Wurm, Fred L. Bookstein, Martin Haeusler, Gerhard W. Weber

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Multi-modal plasma focused ion beam serial section tomography of an organic paint coating

Multi-modal plasma focused ion beam serial section tomography of an organic paint coating

Pigment distributions have a critical role in the corrosion protection properties of organic paint coatings, but they are difficult to image in 3D over statistically significant volumes and at sufficiently high spatial resolutions required for detailed analysis. Here we report, for the first time, large volume analytical serial sectioning tomography of an organic composite coating using a xenon Plasma Focused Ion Beam (PFIB) combined with secondary electron imaging, energy dispersive X-ray (E... Read more

Zhong Xiangli, M. Grace Burke, Philip J. Withers, Zhang Xun, Zhou Xiaorong, Timothy L. Burnett, Liu Yanwen, Stuart B. Lyon, Simon R.Gibbon

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Three-Dimensional In Situ XCT Characterisation and FE Modelling of Cracking in Concrete

Three-Dimensional In Situ XCT Characterisation and FE Modelling of Cracking in Concrete

An improved understanding of 3D cracking in concrete can be achieved by multiscale experiments and numerical modelling based on realistic microstructures, for the development of materials with higher strength, durability, and fracture resistance.

Three-dimensional (3D) characterisation and modelling of cracking in concrete have been always of great importance and interest in civil engineering. In this study, an in situ microscale X-ray computed tomography (XCT) test was carried out to ... Read more

Wenyuan Ren, Zhenjun Yang, Rajneesh Sharma, Samuel A. McDonald, Paul M. Mummery

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Three-dimensional image based modelling of transport parameters in lithium–sulfur batteries

Three-dimensional image based modelling of transport parameters in lithium–sulfur batteries

An elemental sulfur electrode was imaged with X-ray micro and nano computed tomography and segmented into its constituent phases. Morphological parameters including phase fractions and pore and particle size distributions were calculated directly from labelled image data, and flux based simulations were performed to determine the effective molecular diffusivity of the pore phase and electrical conductivity of the conductive carbon and binder phase, D... Read more

Chun Tan, Matthew D. R. Kok , Sohrab R. Daemi , Daniel J. L. Brett and Paul R. Shearing

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Multiscale tomographic analysis of the thermal failure of Na-Ion batteries

Multiscale tomographic analysis of the thermal failure of Na-Ion batteries

In recent years, the ability to examine the processes that cause the catastrophic failure of batteries as a result of thermal runaway has improved substantially. In this work, the effect of thermal runaway on the microstructure of the electrodes of a Na-ion battery is examined using X-ray computed tomography for the first time. The thermal failure induced via accelerating rate calorimetry enabled the examination of failed electrodes, which were subsequently compared with fresh s... Read more

Robinson, J. B., Heenan, T. M. M., Jervis, J. R., Tan, C., Kendrick, E., Brett, D. J. L., & Shearing, P. R.

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In situ compression and X-ray computed tomography of flow battery electrodes

In situ compression and X-ray computed tomography of flow battery electrodes

Redox flow batteries offer a potential solution to an increase in renewable energy generation on the grid by offering long-term, large-scale storage and regulation of power. However, they are currently underutilised due to cost and performance issues, many of which are linked to the microstructure of the porous carbon electrodes used. Here, for the first time, we offer a detailed study of the in situ effects of compression on a commercially available carbon felt electrode. Visualisation ... Read more

Rhodri Jervis , Matt D.R. Kok , Tobias P. Neville , Quentin Meyer , Leon D. Brown , Francesco Iacoviello , Jeff T. Gostick , Dan J.L. Brett , Paul R. Shearing

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Three-dimensional thermal stress analysis of the re-oxidized Ni-YSZ anode functional layer in solid oxide fuel cells

Three-dimensional thermal stress analysis of the re-oxidized Ni-YSZ anode functional layer in solid oxide fuel cells

Nickel-yttria-stabilized zirconia (Ni-YSZ) cermet is widely used as an anode material in solid oxide fuel cells (SOFCs); however, Ni re-oxidation causes critical problems due to volume expansion, which causes high thermal stress. We fabricated a Ni-YSZ anode functional layer (AFL), which is an essential component in high-performance SOFCs, and re-oxidized it to investigate the related three-dimensional (3D) microstructural and thermo-mechanical effects. A 3D model of the re-oxidized AFL ... Read more

Jun Woo Kim, Kiho Bae, Hyun Joong Kim, Ji-won Son, Namkeun Kim, Stefan Stenfelt, Fritz B. Prinz, Joon Hyung Shim

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A three-dimensional heterogeneity analysis of electrochemical energy conversion in SOFC anodes using electron nanotomography and mathematical modeling

A three-dimensional heterogeneity analysis of electrochemical energy conversion in SOFC anodes using electron nanotomography and mathematical modeling

In this paper a fully three dimensional, multiphase, micro-scale solid oxide fuel cellanode transport phenomena numerical model is proposed and verified. The Butler-Volmer model was combined with empirical relations for conductivity and diffusivity – notably the Fuller-Shetler-Giddings equation, and the Fickian modelfor transport of gas reagents. FIB-SEM tomography of a commercial SOFC stack anode was performed and the resulting images were processed to acquire input data. ... Read more

Tomasz A. Prokop, Katarzyna Berent, Hiroshi Iwai, Janusz S.Szmyd, Grzegorz Brus

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