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.

Drying of Corn Kernels: From Experimental Images to Multiscale Multiphysics Modeling

Drying of Corn Kernels: From Experimental Images to Multiscale Multiphysics Modeling

This work demonstrated the importance and feasibility of experimental image
to simulation workflow. The workflow is successfully applied to a food processing study, where multiphysics and multiscale modeling
based on 3D experimental image reconstruction contributes to the preservation of corn, one of the major food sources for the world population.

Corn kernels have a complex structure as they are composed of a pericarp layer outside and contain hard and soft endosperm and ... Read more

Pawan S. Takhar, and Shuang Zhang

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Synchrotron X-ray tomographic quantification of microstructural evolution in ice cream – a multi-phase soft solid

Synchrotron X-ray tomographic quantification of microstructural evolution in ice cream – a multi-phase soft solid

The microstructure of food affects our sensorial perception, its attractiveness, and the manufactured product’s shelf-life.

Microstructural evolution in soft matter directly influences not only the material’s mechanical and functional properties, but also our perception of that material’s taste. Using synchrotron X-ray tomography and cryo-SEM we investigated the time–temperature evolution of ice cream’s microstructure. This was enabled via three adv... Read more

Enyu Guo, Guang Zeng, Daniil Kazantsev, Peter Rockett, Julian Bent, Mark Kirkland, Gerard Van Dalen, David S. Eastwood, David StJohn and Peter D. Lee

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Modelling deformation and fracture in confectionery wafers

Modelling deformation and fracture in confectionery wafers

The aim of this research is to model the deformation and fracture behaviour of brittle wafers often used in chocolate confectionery products.

Three point bending and compression experiments were performed on beam and circular disc samples respectively to determine the ‘apparent’ stress-strain curves in bending and compression. The deformation of the wafer for both these testing types was observed in-situ within an SEM. The wafer is modelled analytically and numerically as a composi... Read more

Idris K. Mohammeda, Maria N. Charalambides , J. Gordon Williams , John Rasburn

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Microstructural Characterization of Fried Potato Disks Using X‐Ray Micro Computed Tomography

Microstructural Characterization of Fried Potato Disks Using X‐Ray Micro Computed Tomography

Microstructural properties play a key role to affect oil uptake and product quality during frying of foods. The objective of this study was to observe the complex microstructural changes and mass transfer mechanisms in potato disks during frying.

The potato disks of 1.65 mm thickness were fried at 190 °C for 0, 20, 40, 60, and 80 s. X‐ray micro‐computed tomography (CT) was used for 3‐dimensional (3D) imaging of microstructure of porous potato disks. Total porosity, pore size dis... Read more

Tanjila Alam Pawan S. Takhar

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Reinvestigating an enigmatic Late Cretaceous monocot: morphology, taxonomy, and biogeography of Viracarpon

Reinvestigating an enigmatic Late Cretaceous monocot: morphology, taxonomy, and biogeography of Viracarpon

Angiosperm-dominated floras of the Late Cretaceous are essential for understanding the evolutionary, ecological, and geographic radiation of flowering plants.

The Late Cretaceous–early Paleogene Deccan Intertrappean Beds of India contain angiosperm-dominated plant fossil assemblages known from multiple localities in central India. Numerous monocots have been documented from these assemblages, providing a window into an important but poorly understood time in their diversification. On... Read more

Kelly K.S. Matsunaga, Selena Y. Smith, Steven R. Manchester, Dashrath Kapgate, Deepak Ramteke, Amin Garbout, and Herminso Villarraga-Gómez

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Under the armor: X-ray computed tomographic reconstruction of the internal skeleton of Coahomasuchus chathamensis, and a phylogenetic analysis of Aetosauria

Under the armor: X-ray computed tomographic reconstruction of the internal skeleton of Coahomasuchus chathamensis, and a phylogenetic analysis of Aetosauria

Aetosauria is a clade of heavily armored, quadrupedal omnivorous to herbivorous archosaurs known from the Late Triassic across what was the supercontinent of Pangea. Their abundance in many deposits relative to the paucity of other Triassic herbivores indicates that they were key components of Late Triassic ecosystems.

However, their evolutionary relationships remain contentious due, in large part, to their extensive dermal armor, which often obstructs observation of internal skeletal ... Read more

Devin K. Hoffman, Andrew B. Heckert, Lindsay E. Zanno

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A multianalytic investigation of weapon-related injuries in a Late Antiquity necropolis, Mutina, Italy

A multianalytic investigation of weapon-related injuries in a Late Antiquity necropolis, Mutina, Italy

Human skeletal remains from archaeological contexts occasionally present signs of traumatic injuries from weapons, revealing, for example, the degree of interpersonal violence, the type of weapon and the sequence of events of a specific historical context.

Traumatic lesions are generally analyzed using macroscopic and microscopic methods, which are not necessarily integrated in the same study. In this study, we employed a multi-analytical approach to determine i... Read more

Antonino Vazzana, Lucia Martina Scalise, Mirko Traversari, Carla Figus, Salvatore Andrea Apicella, Laura Buti, Gregorio Oxilia, Rita Sorrentino, Silvia Pellegrini, Chiara Matteucci, Lucio Calcagnile, Raffaele Savigni, Robin N.M.Feeney, Giorgio Gruppioni, Stefano Benazziah

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A Middle Triassic pachypleurosaur (Diapsida: Eosauropterygia) from a restricted carbonate ramp in the Western Carpathia

A Middle Triassic pachypleurosaur (Diapsida: Eosauropterygia) from a restricted carbonate ramp in the Western Carpathia

An eosauropterygian skeleton found in the Middle Triassic (upper Anisian) Gutenstein Formation of the Fatric Unit (Demänovská dolina Valley, Low Tatra Mountains, Slovakia) represents the earliest known occurrence of marine tetrapods in the Western Carpathians. The specimen represents a partly articulated portion of the postcranial skeleton (nine dorsal vertebrae, coracoid, ribs, gastral ribs, pelvic girdle, femur and one zeugopodial element). It is assigned to the Pachypleurosauria, more pr... Read more

ANDREJ ČERŇANSKÝ, NICOLE KLEIN, JÁN SOTÁK, MÁRIO OLŠAVSKÝ, JURAJ ŠURKA, and PAVEL HERICH

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Scientists discover the oldest Homo sapiens fossils at Jebel Irhoud, Morocco

Scientists discover the oldest Homo sapiens fossils at Jebel Irhoud, Morocco

New finds of fossils and stone tools from the archaeological site of Jebel Irhoud, Morocco, push back the origins of our species by one hundred thousand years and show that by about 300 thousand years ago important changes in our biology and behaviour had taken place across most of Africa.

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Max Planck Institute for Evolutionary Anthropology (Leipzig, Germany)

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Contrast-enhanced 3D micro-CT of plant tissues using different impregnation techniques

Contrast-enhanced 3D micro-CT of plant tissues using different impregnation techniques

X-ray micro-CT has increasingly been used for 3D imaging of plant structures. At the micrometer reso-lution however, limitations in X-ray contrast often lead to datasets with poor qualitative and quantitative measures, especially within dense cell clusters of plant tissue specimens. The current study developed protocols for delivering a cesium based contrast enhancing solution to varying plant tissue specimens for the purpose of improving 3D tissue structure characterization within plant spec... Read more

Zi Wang, Pieter Verboven and Bart Nicolai, Department of Biosystems KU Leuven – University of Leuven Willem de Croylaan, Leuven Belgium

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Application of nuclear volume measurements to comprehend the cell cycle in root-knot nematode-induced giant cells

Application of nuclear volume measurements to comprehend the cell cycle in root-knot nematode-induced giant cells

Root-knot nematodes induce galls that contain giant-feeding cells harboring multiple enlarged nuclei within the roots of host plants. It is recognized that the cell cycle plays an essential role in the set-up of a peculiar nuclear organization that seemingly steers nematode feeding site induction and development. Functional studies of a large set of cell cycle genes in transgenic lines of the model host Arabidopsis thaliana have contributed to better understand the role of the cell cycle comp... Read more

Antonino de Souza Junior José Dijair, Pierre Olivier, Coelho Roberta R., Grossi-de-Sa Maria F., Engler Gilbert, de Almeida Engler Janice / Institut National de la Recherche Agronomique, Université Côte d’Azur, Centre National de la Recherche Scientifique, Institut Sophia Agrobiotech, Sophia-Antipolis, France

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Revealing the skeleton of polar dinosaur using synchrotron computed tomography

Revealing the skeleton of polar dinosaur using synchrotron computed tomography

Leaellynasaura amicagraphica was a small, bipedal, herbivorous dinosaur from the Early Cretaceous (~106 million years ago) of Australia within the Antarctic Circle of that time.

Synchrotron scans, and the resulting 3D reconstruction of the skull and post-cranial skeleton, provide a unique view of the morphology of Leaellynasaura, and allows this material to be 3D printed for display.

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1University College London, UK; Monash University, Melbourne, Australia; Museum Victoria, Melbourne, Australia

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2 BILLION years old fossils appear to represent a first experiment in megascopic multicellularity

2 BILLION years old fossils appear to represent a first experiment in megascopic multicellularity

The Paleoproterozoic Era witnessed crucial steps in the evolution of Earth’s surface environments following the first appreciable rise of free atmospheric oxygen concentrations ∼2.3 to 2.1 Ga ago, and concomitant shallow ocean oxygenation. Combined microtomography, geochemistry, and sedimentary analysis suggest a biota fossilized during early diagenesis. The emergence of this biota follows a rise in atmospheric oxygen, which is consistent with the idea that surface oxygenation allowe... Read more

Abderrazak El Albani, Laboratoire HYDRASA, UMR 6269 CNRS-INSU, Université de Poitiers, France

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AMSC Research, LLC uses Amira software to understand processes and rituals of Egyptian mummification

AMSC Research, LLC uses Amira software to understand processes and rituals of Egyptian mummification

“Scanning is important, but it is really just the first step in an immersive exploration of artifacts” says Elias. Raw data from scans taken of mummies (or other archaeological subject matter) is delivered to AMSC Research as files in a language known as DICOM. Next, these are converted into a visually readable form for analytical purposes and to launch the creative modeling process.

Elias uses Amira software to analyze scan data. Mummies are biological entities, so apart f... Read more

Dr. Jonathan Elias, AMSC Research, LLC

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The Oriental Institute of the University of Chicago uses Amira sotware to visualize and analyze Egyptian mummified birds

The Oriental Institute of the University of Chicago uses Amira sotware to visualize and analyze Egyptian mummified birds

Entering this special exhibit at the Oriental Institute Museum at the University of Chicago, you will immediately feel transported into the ancient  Nile delta marshlands with its lush green flora.

The combination of colors, video footage, bird songs, and ancient artifacts will give you the impression that you have just traveled through time and space.

At the start of the exhibit, you will find one of their most impressive artifacts, an empty shell of an ostrich egg from 3100 B... Read more

Rozenn Bailleul-LeSuer, The University of Chicago, Department of Near Eastern Languages and Civilizations

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The University of Birmingham uses Avizo software to explore the North Sea as it was 10,000 years ago

The University of Birmingham uses Avizo software to explore the North Sea as it was 10,000 years ago

The IBM Visual and Spatial Technology Centre (VISTA) specialize in large scale data capture, analysis and visualization for the Arts and Humanities at the University of Birmingham, UK. The VISTA Centre supports interdisciplinary academic research and application development for visualization, spatial analysis and imaging using state-ofthe- art technology.

Avizo software is a fundamental tool that provides new opportunities for data... Read more

IBM Visual and Spatial Technology Centre, Institute of Archaeology, Birmingham Archaeology, University of Birmingham, UK

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Exploring hominin and non-hominin primate dental fossil remains with neutron microtomography

Exploring hominin and non-hominin primate dental fossil remains with neutron microtomography

Fossil dental remains are an archive of unique information for paleobiological studies. Computed microtomography based on Xray microfocus sources (X-µCT) and Synchrotron Radiation (SR-µCT) allow subtle quantification at the micron and sub-micron scale of the meso- and microstructural signature imprinted in the mineralized tissues, such as enamel and dentine, through highresolution “virtual histology”. Nonetheless, depending on the degree of alterations undergone during fossiliza... Read more

Clément Zanolli, Laboratory AMIS, UMR 5288, University of Toulouse III - Paul Sabatier, France, and al.

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A virtual world of paleontology

A virtual world of paleontology

Computer-aided visualization and analysis has revolutionized the study of fossils. Fossils can now be characterized in three dimensions and in unprecedented detail. The resulting digital reconstructions can be used in rigorous functional analyses. Hypotheses regarding the function of extinct organisms can therefore be tested.

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Trends in Ecology & Evolution

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Paleozoic Nymphal Wing Pads Support Dual Model of Insect Wing Origins

Paleozoic Nymphal Wing Pads Support Dual Model of Insect Wing Origins

The appearance of wings in insects, early in their evolution [1], has been one of the more critical innovations contributing to their extraordinary diversity. Despite the conspicuousness and importance of wings, the origin of these structures has been difficult to resolve and represented one of the “abominable mysteries” in evolutionary biology [2]. More than a century of debate has boiled the matter down to two competing alternatives—one of wings representing an extension of the thorac... Read more

Department of Zoology, Faculty of Science, Charles University, Praha, Czech Republic and al.

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Fragmentation of wall rock garnets during deep crustal earthquakes

Fragmentation of wall rock garnets during deep crustal earthquakes

Deformation of the lithosphere by seismic slip along faults dissipates energy to the immediate surroundings as heat and elastic waves. Heat effects may occasionally cause frictional melting along the slip plane, leading to the formation of pseudotachylite, a characteristic fine-grained or glassy fault rock, interpreted as the quenched melt. Recently, it has been suggested that mechanical effects due to rapid loading, such as the formation of shiny “mirror” surfaces or pulverization of roc... Read more

Department of Geosciences, University of Oslo; Department of Earth Sciences, Utrecht University; Géosciences Montpellier, Université de Montpellier; Debye Institute for Nanomaterials Science, Utrecht University

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