MRI of postmortem specimens of endangered species for comparative brain anatomy

Many of the 5,500 threatened species of vertebrates found worldwide are highly protected and generally unavailable for scientific investigation. Here we describe a noninvasive protocol to visualize the structure and size of brain in postmortem specimens. We demonstrate its utility by examining four endangered species of kiwi (Apteryx spp.). Frozen specimens are thawed and imaged using MRI, revealing internal details of brain structure. External brain morphology and an estimate of brain volume can be reliably obtained by creating 3D models. This method has facilitated a comparison of brain structure in the different kiwi species, one of which is on the brink of extinction. This new approach has the potential to extend our knowledge of brain structure to species that have until now been outside the reach of anatomical investigation.

Accelerating entomology with Web3D insects

Capturing high-quality 3D models of insects is challenging - they are usually too small for laser or depth camera based systems, and techniques such as CT scanning do not record color. We have developed a prototype system that generates unprecedentedly high-quality natural-color 3D models of various insects from 3mm to 30 mm in length. Through the use of 3D web standards we are able to use these models to develop novel applications for entomologists and ensure wide accessibility. © 2014 Authors.

Magnetic resonance imaging: An accurate, radiation-free, alternative to computed tomography for the primary imaging and three-dimensional reconstruction of the bony orbit

Purpose: To determine the extent to which the accuracy of magnetic resonance imaging (MRI) based virtual 3-dimensional (3D) models of the intact orbit can approach that of the gold standard, computed tomography (CT) based models. The goal was to determine whether MRI is a viable alternative to CT scans in patients with isolated orbital fractures and penetrating eye injuries, pediatric patients, and patients requiring multiple scans in whom radiation exposure is ideally limited. Materials and Methods: Patients who presented with unilateral orbital fractures to the Royal Brisbane and Women’s Hospital from March 2011 to March 2012 were recruited to participate in this cross-sectional study. The primary predictor variable was the imaging technique (MRI vs CT). The outcome measurements were orbital volume (primary outcome) and geometric intraorbital surface deviations (secondary outcome)between the MRI- and CT-based 3D models. Results: Eleven subjects (9 male) were enrolled. The patients’ mean age was 30 years. On average, the MRI models underestimated the orbital volume of the CT models by 0.50 0.19 cm3 . The average intraorbital surface deviation between the MRI and CT models was 0.34 0.32 mm, with 78 2.7% of the surface within a tolerance of 0.5 mm. Conclusions: The volumetric differences of the MRI models are comparable to reported results from CT models. The intraorbital MRI surface deviations are smaller than the accepted tolerance for orbital surgical reconstructions. Therefore, the authors believe that MRI is an accurate radiation-free alternative to CT for the primary imaging and 3D reconstruction of the bony orbit. �

Developing a three-dimensional in-vitro cell culture model for studying breast and prostate cancer using starPEG-heparin hydrogels

Introduction Hydrogels prepared from poly(ethylene glycol) (PEG) and maleimide-functionalized heparin provide a potential matrix for use in developing three dimensional (3D) models. We have previously demonstrated that these hydrogels support the cultivation of human umbilical vein endothelial cells (HUVECs) (1). We extend this body of work to study the ability to create an extracellular matrix (ECM)-like model to study breast and prostate cancer cell growth in 3D. Also, we investigate the ability to produce a tri-culture mimicking tumour angiogenesis with cancer spheroids, HUVECs and mesenchymal stem cells (MSC). Materials and Methods The breast cancer cell lines, MCF-7 and MDA-MB-231, and prostate cancer cell lines, LNCaP and PC3, were seeded into starPEG-heparin hydrogels and grown for 14 Days to analyse the effects of varying hydrogel stiffness on spheroid development. Resulting hydrogel constructs were analyzed via Alamar Blue assays, light microscopy, and immunofluorescence staining for cytokeratin 8/18, Ki67 and E-Cadherin. Cancer cell lines were then pre-grown in hydrogels for 5-7 days and then re-seeded into starPEG-heparin hydrogels functionalised with RGD, SDF-1, bFGF and VEGF as spheroids with HUVECs and MSC and grown for 14 days as a tri-culture in Endothelial Cell Growth Medium (ECGM; Promocell). Cell lines were also seeded as a single cell suspension into the functionalised tri-culture system. Cultures were fixed in 4% paraformaldehyde and analysed via immunostaining for Von Willebrand Factor and CD31, as well as the above mentioned markers, and observed using confocal microscopy. Results Cultures prepared in MMP-cleavable starPEG-heparin hydrogels display spheroid formation in contrast to adherent growth on tissue culture plastic. Small differences were visualised in cancer spheroid growth between different gel stiffness across the range of cell lines. Cancer cell lines were able to be co-cultivated with HUVECs and MSC. HUVEC tube formation and cancer line spheroid formation occured after 3-4 days. Interaction was visualised between tumours and HUVECs via confocal microscopy. Slightly increased interaction was seen between cancer tumours and micro-vascular tubes when seeded as single cells compared with the pre-formed spheroid approach. Further studies intend to utilise cytokine gradients to further optimise the ECM environment of in situ tumour angiogenesis. Discussion and Conclusions Our results confirm the suitability of hydrogels constructed from starPEG-heparin for HUVECs and MSC co-cultivation with cancer cell lines to study cell-cell and cell-matrix interactions in a 3D environment. This represents a step forward in the development of 3D culture models to study the pathomechanisms of breast and prostate cancer. References 1. Tsurkan MV, Chwalek K, Prokoph S, Zieris A, Levental KR, Freudenberg U, Werner C. Advanced Materials. 25, 2606-10, 2013. Disclosures The authors declare no conflicts of interest

MITIE C-Arm - Advanced innovation in education

Aim: In 2013 QUT introduced the Medical Imaging Training Immersive Environment (MITIE) as a virtual reality (VR) platform that allowed students to practice general radiography. The system software has been expanded to now include C-Arm. The aim of this project was to investigate the use of this technology in the pedagogy of undergraduate medical imaging students who have limited to no experience in the use of the C-Arm clinically. Method: The Medical Imaging Training Immersive Environment (MITIE) application provides students with realistic and fully interactive 3D models of C-Arm equipment. As with VR initiatives in other health disciplines (1–2) the software mimics clinical practice as much as possible and uses 3D technology to enhance 3D spatial awareness and realism. The application allows students to set up and expose a virtual patient in a 3D environment as well as creating the resultant “image” for comparison with a gold standard. Automated feedback highlights ways for the student to improve their patient positioning, equipment setup or exposure factors. The students' equipment knowledge was tested using an on line assessment quiz and surveys provided information on the students' pre-clinical confidence scale, with post-clinical data comparisons. Ethical approval for the project was provided by the university ethics panel. Results: This study is currently under way and this paper will present analysis of initial student feedback relating to the perceived value of the application for confidence in a high risk environment (i.e. operating theatre) and related clinical skills development. Further in-depth evaluation is ongoing with full results to be presented. Conclusion: MITIE C-Arm has a development role to play in the pre-clinical skills training for Medical Radiation Science students. It will augment their theoretical understanding prior to their clinical experience. References 1. Bridge P, Appleyard R, Ward J, Phillips R, Beavis A. The development and evaluation of a virtual radiotherapy treatment machine using an immersive visualisation environment. Computers and Education 2007; 49(2): 481–494. 2. Gunn T, Berry C, Bridge P et al. 3D Virtual Radiography: Development and Initial Feedback. Paper presented at the 10th Annual Scientific Meeting of Medical Imaging and Radiation Therapy, March 2013 Hobart, Tasmania.

Mimicking the tumour microenvironment (TME): Angiogenesis in tumour progression

Two-dimensional (2D) substrates cannot accurately mimic the complex matrix of native TME, whereas 3D models can recapitulate the natural tumour progression in vitro. As part of the tumour stroma, fibroblasts and endothelial cells (ECs) are well-known to not only support tumour growth but also to reduce the efficacy of anti-cancer drugs. Particularly, ECs are involved in the process of tumour vascularisation which represents a crucial step in the progression of cancer. Most of the previous studies are carried out in animal models or 2D cultures; hence, a detailed evaluation of experimental data is poor. To address this issue, we aim to develop a novel 3D in vitro approach, to mimic native tumour angiogenesis in 3D and to quantify the developed vascular network.

Automated fit assessment of intramedullary nail designs during insertion

Modern intramedullary nails, which are utilised for the treatment of bone fractures, need to be designed to fit the anatomy of the patient population. Traditional and recent semi-automated approaches for quantifying the anatomical fit between bones and nail designs suffer from various drawbacks. This thesis proposed an automated comprehensive nail design validation method. The developed software tool was utilised to quantify the anatomical fit of four commercial nail designs. Furthermore, the thesis demonstrated the existence of a bone-nail specific nail entry point. The developed method is of great benefit for the implant manufacturing industry as a nail design validation tool.

Optimizing the quantum dot: Plasmon interaction in a nano gap waveguide

Spontaneous emission (SE) of a Quantum emitter depends mainly on the transmission strength between the upper and lower energy levels as well as the Local Density of States (LDOS)[1]. When a QD is placed in near a plasmon waveguide, LDOS of the QD is increased due to addition of the non-radiative decay and a plasmonic decay channel to free space emission[2-4]. The slow velocity and dramatic concentration of the electric field of the plasmon can capture majority of the SE into guided plasmon mode (Гpl ). This paper focused on studying the effect of waveguide height on the efficiency of coupling QD decay into plasmon mode using a numerical model based on finite elemental method (FEM). Symmetric gap waveguide considered in this paper support single mode and QD as a dipole emitter. 2D simulation models are done to find normalized Гpl and 3D models are used to find probability of SE decaying into plasmon mode ( β) including all three decay channels. It is found out that changing gap height can increase QD-plasmon coupling, by up to a factor of 5 and optimally placed QD up to a factor of 8. To make the paper more realistic we briefly studied the effect of sharpness of the waveguide edge on SE emission into guided plasmon mode. Preliminary nano gap waveguide fabrication and testing are already underway. Authors expect to compare the theoretical results with experimental outcomes in the future

[R_Enciso_Concepcion] Levantamiento topográfico de la ermita y el crucero de la Concepción (Enciso, La Rioja)

[ES] Este proyecto tiene una continuación en el siguiente registro:

Enriching the content provided by cultural catalogues with data from institutional repositories

[EN] This paper is an outcome of the ERASMUS IP program called TOPCART, there are more information about this project that can be accessed from the following item:

Microfluidic effects of transporting signaling components in cell coculture chips

A theoretical model has been developed to investigate the microfluidic transport of the signaling chemicals in the cell coculture chips. Using an epidermal growth factor (EGF)-like growth factor as the sample chemical, the effects of velocities and channel geometry were studied for the continuous-flow microchannel bioreactors. It is found that different perfusion velocities must be applied in the parallel channels to facilitate the communication, i.e., transport of the signaling component, between the coculture channels. Such communication occurs in a unidirectional way because the signaling chemicals can only flow from the high velocity area to the low velocity area. Moreover, the effect of the transport of the signaling component between the coculture channels on the growth of the monolayer cells and the multicellular tumor spheroid (MTS) in the continuous-flow coculture environment were simulated using 3D models. The numerical results demonstrated that the concentration gradients will induce the heterogeneous growth of the cells and the MTSs, which should be taken into account in designing the continuous-flow perfusion bioreactor for the cell coculture research.

[A_Llodio_Yermo] Documentación geométrica para la puesta en valor y difusión social del Santuario de Santa María del Yermo (Laudio/Llodio, Álava)

[ES] La iglesia de Santa María tiene una planta de unos 22x18 metros y cuenta con tres pórticos (sur, oeste y norte) así como una espadaña exenta. Adyacente al sudeste se encuentra la ermita de Santa Lucía. Las excavaciones arqueológicas de dos zonas de unos 6 x 3 metros en el interior y el exterior de la iglesia sirven como hilo conductor a las jornadas de puertas abiertas al público.

Avaliação tridimensional da sínfise mandibular em crânios secos e sua associação com diferentes classificações de tipos faciais

O objetivo deste trabalho foi desenvolver um estudo morfológico quantitativo e qualitativo da região da sínfise mandibular (SM), através da construção de modelos tridimensionais (3D) e avaliar o seu grau de associação com diferentes classificações de padrões faciais. Foram avaliados 61 crânios secos humanos de adultos jovens com oclusão normal, com idade entre 18 e 45 anos e dentadura completa. Tomografias computadorizadas de feixe cônico (TCFC) de todos os crânios foram obtidas de forma padronizada. O padrão facial foi determinado por método antropométrico e cefalométrico. Utilizando o critério antropométrico, tomando como referência o índice facial (IF), o padrão facial foi classificado em: euriprósopo (≤84,9), mesoprósopo (85,0 - 89,9) e leptoprósopo (≥90,0). Pelo critério cefalométrico, o plano mandibular (FMA) determinou o padrão facial em curto (≤21,0), médio (21,1 - 29,0) e longo (≥29,1); e o índice de altura facial (IAF) classificou a face em hipodivergente (≥0,750), normal (0,749 - 0,650) e hiperdivergente (≤0,649). A construção de modelos 3D, representativos da região da SM, foi realizada com o auxílio do software ITK-SNAP. Os dentes presentes nesta região, incisivos, caninos e pré-molares inferiores, foram separados do modelo por técnica de segmentação semi-automática, seguida de refinamento manual. Em seguida, foram obtidos modelos 3D somente com o tecido ósseo, possibilitando a mensuraçãodo volume ósseo em mm3 (VOL) e da densidade radiográfica, pela média de intensidade dos voxels (Mvox). No programa Geomagic Studio 10 foi feita uma superposição anatômica dos modelos 3D em bestfit para estabelecer um plano de corte padronizado na linha média. Para cada sínfise foi medida a altura (Alt), a largura (Larg) e calculado o índice de proporção entre altura e largura (PAL). A avaliação da presença de defeitos alveolares foi feita diretamente na mandíbula,obtendo-se a média de todas as alturas ósseas alveolares (AltOss) e a média da dimensão das deiscências presentes (Medef). O índice de correlação intra-classe (ICC) com valores entre 0,923 a 0,994,indicou alta reprodutibilidade e confiabilidade das variáveis medidas. As diferenças entre os grupos, determinados pelas classificações do padrão facial (IF, FMA e IAF), foram avaliadas através da análise de variância (oneway ANOVA) seguida do teste post-hoc de Tukey. O grau de associação entre o padrão facial e as variáveis Vol, Mvox, PAL, Alt, Larg, AltOss e Medef foi avaliado pelo coeficiente de correlação de Pearson com um teste t para r. Os resultados indicaram ausência de diferença ou associação entre o volume, densidade radiográfica e presença de defeitos alveolares da SM e o padrão facial quando determinado pelo IF, FMA e IAF. Verificou-se tendência de SM mais longas nos indivíduos com face alongada, porém a largura não mostrou associação com o padrão facial. Estes resultados sugerem que as classificações utilizadas para determinar o padrão facial não representam satisfatoriamente o caráter 3D da face humana e não estão associadas com a morfologia da SM.

Utilização de modelos virtuais tridimensionais na interação com a informação georreferenciada

Esta pesquisa tem como finalidade explorar os recursos de interação do usuário com a informação georreferenciada, utilizando o próprio ambiente físico e seus elementos como interface. A indexação geográfica de arquivos digitais e os recursos disponíveis pela computação móvel estabeleceram um novo modelo de interação com a informação. Cabe ao designer criar sistemas e interfaces que levem em consideração a localização do usuário no acesso da informação atribuída ao entorno. Foi identificado que as soluções desenvolvidas para esse propósito utilizam telas e outros aparatos tecnológicos que constrangem a relação do usuário com o ambiente e interferem na experiência interativa. Como desdobramento da pesquisa foi desenvolvido um aplicativo que dispensa a tela na visualização e interação com a camada informacional do ambiente físico. O sistema utiliza os sensores de localização e orientação presentes nos smartphones para interagir com o entorno mapeado e georreferenciado. Dessa forma, o usuário, ao apontar o aparelho e selecionar diretamente o objeto de interesse, recebe os dados atribuídos a ele. Sem a interferência de telas ou dispositivos imersivos, o próprio ambiente se apresenta como interface de interação, dispensando novos ícones ou símbolos e tornando a tecnologia mais sutil em seu uso cotidiano.

Learning shape priors for single view reconstruction

In this paper, we aim to reconstruct free-from 3D models from a single view by learning the prior knowledge of a specific class of objects. Instead of heuristically proposing specific regularities and defining parametric models as previous research, our shape prior is learned directly from existing 3D models under a framework based on the Gaussian Process Latent Variable Model (GPLVM). The major contributions of the paper include: 1) a probabilistic framework for prior-based reconstruction we propose, which requires no heuristic of the object, and can be easily generalized to handle various categories of 3D objects, and 2) an attempt at automatic reconstruction of more complex 3D shapes, like human bodies, from 2D silhouettes only. Qualitative and quantitative experimental results on both synthetic and real data demonstrate the efficacy of our new approach. ©2009 IEEE.