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.

Mitochondria-rough-ER contacts in the liver regulate systemic lipid homeostasis

Mitochondria-rough-ER contacts in the liver regulate systemic lipid homeostasis

In this work, we studied mitochondria-rER contacts in vivo by serial section electron tomography (SSET) and 3D reconstruction analysis of cryo-fixed mouse tissue samples. We characterized this inter-organelle association as mitochondria tightly wrapped by sheets of curved rER (wrappER). Further, we used multi-omics and genetic approaches to obtain evidence that the wrappER is a distinct intracellular compartment and demonstrate the importance of wrappER-mitochondria contacts for v... Read more

Irene Anastasia, Nicolò Ilacqua, Andrea Raimondi, Philippe Lemieux, Rana Ghandehari-Alavijeh, Guilhem Faure, Sergei L. Mekhedov, Kevin J. Williams, Federico Caicci, Giorgio Valle, Marta Giacomello, Ariel D. Quiroga, Richard Lehner, Michael J. Miksis, Katalin Toth, Thomas Q. de Aguiar Vallim, Eugene V. Koonin, Luca Scorrano, Luca Pellegrini

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Metal-Organic Framework Crystal-Glass Composites

Metal-Organic Framework Crystal-Glass Composites

The majority of research into metal-organic frameworks (MOFs) focuses on their crystalline nature. However, in recent research the vitrification of a number of MOFs has been revealed. We propose that the solid-liquid phase transitions involved in MOF-glass formation can provide unique opportunities for the creation of a new class of functional, stable and porous composite materials. Described herein is the design, synthesis, and characterisation of novel metal-organic framework (MOF) crystal-... Read more

Jingwei Hou, Christopher W. Ashling, Sean M. Collins, Andraž Krajnc, Chao Zhou, Louis Longley, Duncan N. Johnstone, Philip A. Chater, Shichun Li, François-Xavier Coudert, David A. Keen, Paul A. Midgley, Gregor Mali, Vicki Chen, Thomas Bennett

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Laser-matter interactions in additive manufacturing of SS316L and 13-93 bioactive glass revealed by in situ X-ray imaging

Laser-matter interactions in additive manufacturing of SS316L and 13-93 bioactive glass revealed by in situ X-ray imaging

Laser-matter interactions in laser additive manufacturing (LAM) occur on short time scales (10-6 – 10-3 s) and have traditionally proven difficult to characterise. We investigate these interactions during LAM of stainless steel (SS316 L) and 13-93 bioactive glass powders using a custom built LAM process replicator (LAMPR) with in situ and operando synchrotron X-ray radiography. This reveals a range of melt track solidification phenomena as... Read more

Chu Lun Alex Leung, Sebastian Marussi, Michael Towrie, Jesus del Val Garcia, Robert C. Atwood, Andrew J. Bodey, Julian R. Jones, Philip J. Withers, Peter D.Lee

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X-ray Tomographic Imaging of Tensile Deformation Modes of Electrospun Biodegradable Polyester Fibers

X-ray Tomographic Imaging of Tensile Deformation Modes of Electrospun Biodegradable Polyester Fibers

Electrospun constructs for the repair of load-bearing tissues are required to have adequate mechanical properties. However, the failure mechanisms of electrospun fibrous materials are not well understood. Existing literature focuses on failure modes of individual fibers and/or on bulk mechanical properties of whole fiber mats.

Electrospinning allows the production of fibrous networks for tissue engineering, drug delivery, and wound healing in health care. It enables the production of c... Read more

Jekaterina Maksimcuka; Akiko Obata ; William W. Sampson ; Remi Blanc ; Chunxia Gao ; Philip J. Withers ; Olga Tsigkou ; Toshihiro Kasuga ; Peter D. Lee ; Gowsihan Poologasundarampillai

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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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In situ studies of materials for high temperature CO2 capture and storage

In situ studies of materials for high temperature CO2 capture and storage

Carbon capture and storage (CCS) offers a possible solution to curb the CO2 emissions from stationary sources in the coming decades, considering the delays in shifting energy generation to carbon neutral sources such as wind, solar and biomass.

The most mature technology for post-combustion capture uses a liquid sorbent, amine scrubbing. However, with the existing technology, a large amount of heat is required for the regeneration of the liquid sorbent, which... Read more

Matthew T. Dunstan, Serena A. Maugeri, Wen Liu, Matthew G. Tucker, Oluwadamilola O. Taiwo, Belen Gonzalez, Phoebe K. Allan, Michael W. Gaultois, Paul R. Shearing, David A. Keen, Anthony E. Phillips, Martin T. Dove, Stuart A. Scott, John S. Dennish and Clare P. Grey

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In situ observation of mechanical damage within a SiC-SiC ceramic matrix composite

In situ observation of mechanical damage within a SiC-SiC ceramic matrix composite

SiC-SiC ceramic matrix composites are candidate materials for fuel cladding in Generation IV nuclear fission reactors and as accident tolerant fuel clad in current generation plant.

Experimental methods are needed that can detect and quantify the development of mechanical damage, to support modelling and qualification tests for these critical components. In situ observations of damage development have been obtained of tensile and C-ring mechanical test specimens of a braided nuclear gr... Read more

L. Saucedo-Mora, T. Lowe, S. Zhao, P.D. Lee, P.M. Mummery, T.J. Marrow

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Microstructural analysis of TRISO particles using multi-scale X-ray computed tomography

Microstructural analysis of TRISO particles using multi-scale X-ray computed tomography

TRISO particles, a composite nuclear fuel built up by ceramic and graphitic layers, have outstanding high temperature resistance. TRISO fuel is the key technology for High Temperature Reactors (HTRs) and the Generation IV Very High Temperature Reactor (VHTR) variant.

TRISO offers unparalleled containment of fission products and is extremely robust during accident conditions. An understanding of the thermal performance and mechanical properties of TRISO fuel requires a detailed knowledg... Read more

T. Lowe, R.S. Bradley, S. Yue, K. Barii, J. Gelb, N. Rohbeck, J. Turner, P.J. Withers

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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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