Realistic visualisation of cultural heritage objects

This research investigation used digital photography in a hemispherical dome, enabling a set of 64 photographic images of an object to be captured in perfect pixel register, with each image illuminated from a different direction. This representation turns out to be much richer than a single 2D image, because it contains information at each point about both the 3D shape of the surface (gradient and local curvature) and the directionality of reflectance (gloss and specularity). Thereby it enables not only interactive visualisation through viewer software, giving the illusion of 3D, but also the reconstruction of an actual 3D surface and highly realistic rendering of a wide range of materials. The following seven outcomes of the research are claimed as novel and therefore as representing contributions to knowledge in the field: A method for determining the geometry of an illumination dome; An adaptive method for finding surface normals by bounded regression; Generating 3D surfaces from photometric stereo; Relationship between surface normals and specular angles; Modelling surface specularity by a modified Lorentzian function; Determining the optimal wavelengths of colour laser scanners; Characterising colour devices by synthetic reflectance spectra

N-colour separation methods for accurate reproduction of spot colours

In packaging, spot colours are used to print key information like brand logos and elements for which the colour accuracy is critical. The present study investigates methods to aid the accurate reproduction of these spot colours with the n-colour printing process. Typical n-colour printing systems consist of supplementary inks in addition to the usual CMYK inks. Adding these inks to the traditional CMYK set increases the attainable colour gamut, but the added complexity creates several challenges in generating suitable colour separations for rendering colour images. In this project, the n-colour separation is achieved by the use of additional sectors for intermediate inks. Each sector contains four inks with the achromatic ink (black) common to all sectors. This allows the extension of the principles of the CMYK printing process to these additional sectors. The methods developed in this study can be generalised to any number of inks. The project explores various aspects of the n-colour printing process including the forward characterisation methods, gamut prediction of the n-colour process and the inverse characterisation to calculate the n-colour separation for target spot colours. The scope of the study covers different printing technologies including lithographic offset, flexographic, thermal sublimation and inkjet printing. A new method is proposed to characterise the printing devices. This method, the spot colour overprint (SCOP) model, was evaluated for the n-colour printing process with different printing technologies. In addition, a set of real-world spot colours were converted to n-colour separations and printed with the 7-colour printing process to evaluate against the original spot colours. The results show that the proposed methods can be effectively used to replace the spot coloured inks with the n-colour printing process. This can save significant material, time and costs in the packaging industry

A Novel Inpainting Framework for Virtual View Synthesis

Multi-view imaging has stimulated significant research to enhance the user experience of free viewpoint video, allowing interactive navigation between views and the freedom to select a desired view to watch. This usually involves transmitting both textural and depth information captured from different viewpoints to the receiver, to enable the synthesis of an arbitrary view. In rendering these virtual views, perceptual holes can appear due to certain regions, hidden in the original view by a closer object, becoming visible in the virtual view. To provide a high quality experience these holes must be filled in a visually plausible way, in a process known as inpainting. This is challenging because the missing information is generally unknown and the hole-regions can be large. Recently depth-based inpainting techniques have been proposed to address this challenge and while these generally perform better than non-depth assisted methods, they are not very robust and can produce perceptual artefacts. This thesis presents a new inpainting framework that innovatively exploits depth and textural self-similarity characteristics to construct subjectively enhanced virtual viewpoints. The framework makes three significant contributions to the field: i) the exploitation of view information to jointly inpaint textural and depth hole regions; ii) the introduction of the novel concept of self-similarity characterisation which is combined with relevant depth information; and iii) an advanced self-similarity characterising scheme that automatically determines key spatial transform parameters for effective and flexible inpainting. The presented inpainting framework has been critically analysed and shown to provide superior performance both perceptually and numerically compared to existing techniques, especially in terms of lower visual artefacts. It provides a flexible robust framework to develop new inpainting strategies for the next generation of interactive multi-view technologies

High-resolution fluorescence endomicroscopy for rapid evaluation of breast cancer margins

Breast cancer is a major public health problem world-wide and the second leading cause of cancer-related female deaths. Breast conserving surgery (BCS), in the form of wide local excision (WLE), allows complete tumour resection while maintaining acceptable cosmesis. It is the recommended treatment for a large number of patients with early stage disease or, in more advanced cases, following neoadjuvant chemotherapy. About 30% of patients undergoing BCS require one or more re-operative interventions, mainly due to the presence of positive margins. The standard of care for surgical margin assessment is post-operative examination of histopathological tissue sections. However, this process is invasive, introduces sampling errors and does not provide real-time assessment of the tumour status of radial margins. The objective of this thesis is to improve intra-operative assessment of margin status by performing optical biopsy in breast tissue. This thesis presents several technical and clinical developments related to confocal fluorescence endomicroscopy systems for real-time characterisation of different breast morphologies. The imaging systems discussed employ flexible fibre-bundle based imaging probes coupled to high-speed line-scan confocal microscope set-up. A preliminary study on 43 unfixed breast specimens describes the development and testing of line-scan confocal laser endomicroscope (LS-CLE) to image and classify different breast pathologies. LS-CLE is also demonstrated to assess the intra-operative tumour status of whole WLE specimens and surgical excisions with high diagnostic accuracy. A third study demonstrates the development and testing of a bespoke LS-CLE system with methylene blue (MB), an US Food and Drug Administration (FDA) approved fluorescent agent, and integration with robotic scanner to enable large-area in vivo imaging of breast cancer. The work also addresses three technical issues which limit existing fibre-bundle based fluorescence endomicroscopy systems: i) Restriction to use single fluorescence agent due to low-speed, single excitation and single fluorescence spectral band imaging systems; ii) Limited Field of view (FOV) of fibre-bundle endomicroscopes due to small size of the fibre tip and iii) Limited spatial resolution of fibre-bundle endomicroscopes due to the spacing between the individual fibres leading to fibre-pixelation effects. Details of design and development of a high-speed dual-wavelength LS-CLE system suitable for high-resolution multiplexed imaging are presented. Dual-wavelength imaging is achieved by sequentially switching between 488 nm and 660 nm laser sources for alternate frames, avoiding spectral bleed-through, and providing an effective frame rate of 60 Hz. A combination of hand-held or robotic scanning with real-time video mosaicking, is demonstrated to enable large-area imaging while still maintaining microscopic resolution. Finally, a miniaturised piezoelectric transducer-based fibre-shifting endomicroscope is developed to enhance the resolution over conventional fibre-bundle based imaging systems. The fibre-shifting endomicroscope provides a two-fold improvement in resolution and coupled to a high-speed LS-CLE scanning system, provides real-time imaging of biological samples at 30 fps. These investigations furthered the utility and applications of the fibre-bundle based fluorescence systems for rapid imaging and diagnosis of cancer margins.Open Acces

Lithological mapping of the Troodos ophiolite, Cyprus, using airborne LiDAR topographic data

Traditional field-based lithological mapping can be a time-consuming, costly and challenging endeavour when large areas need to be investigated, where terrain is remote and difficult to access and where the geology is highly variable over short distances. Consequently, rock units are often mapped at coarse-scales, resulting in lithological maps that have generalised contacts which in many cases are inaccurately located. Remote sensing data, such as aerial photographs and satellite imagery are commonly incorporated into geological mapping programmes to obtain geological information that is best revealed by overhead perspectives. However, spatial and spectral limitations of the imagery and dense vegetation cover can limit the utility of traditional remote sensing products. The advent of Airborne Light Detection And Ranging (LiDAR) as a remote sensing tool offers the potential to provide a novel solution to these problems because accurate and high-resolution topographic data can be acquired in either forested or non-forested terrain, allowing discrimination of individual rock types that typically have distinct topographic characteristics. This study assesses the efficacy of airborne LiDAR as a tool for detailed lithological mapping in the upper section of the Troodos ophiolite, Cyprus. Morphometric variables (including slope, curvature and surface roughness) were derived from a 4 m digital terrain model in order to quantify the topographic characteristics of four principal lithologies found in the area. An artificial neural network (the Kohonen Self-Organizing Map) was then employed to classify the lithological units based upon these variables. The algorithm presented here was used to generate a detailed lithological map which defines lithological contacts much more accurately than the best existing geological map. In addition, a separate map of classification uncertainty highlights potential follow-up targets for ground-based verification. The results of this study demonstrate the significant potential of airborne LiDAR for lithological discrimination and rapid generation of detailed lithological maps, as a contribution to conventional geological mapping programmes

Advanced interfaces for biomedical engineering applications in high- and low field NMR/MRI

Das zentrale Thema dieser Dissertation ist die Magnetresonanz(MR)-Sicherheit und MR-Kompatibilität von Bauelementen. Der Öffentlichkeit bekannt ist diese Thematik im Zusammenhang mit kommerziellen Implantaten. Die Gefahren, die sich aus den Wechselwirkungen zwischen dem MR-Tomografen (MRT) und dem Implantat ergeben, hindern viele Patienten daran, eine Untersuchung mittels MRT durchführen zu lassen. MR-Kompatibilität spielt jedoch nicht nur beim Design und der Kennzeichnung von Implantaten eine wichtige Rolle, sondern auch bei der Entwicklung von Bauelementen für die MR-Hardware. Beide Themen, Implantatinteraktionen und Hardware-Design, bilden fundamentale Aspekte dieser Arbeit. Der erste Teil befasst sich mit MRT-Wechselwirkungen von Implantaten. Die Ergebnisse einer umfangreichen Literaturrecherche zeigen, dass dringend belastbare Daten benötigt werden, um die durch MRT ausgelösten Schwingungen von Implantaten besser verstehen zu können. Dies gilt insbesondere für Vibrationen in viskoelastischen Umgebungen wie dem Gehirn. Im Rahmen dieser Arbeit wird ein neuartiges Messsystem vorgestellt, mit dem sich Schwingungen bei Standard-MRT-Aufnahmen und mit hoher Genauigkeit quantitativ messen lassen. Durch die Verwendung einer amplituden- und frequenzgesteuerten externen Stromversorgung werden die Übertragungsfunktionen implantatartiger Strukturen in viskoelastischen Umgebungen präzise bestimmt. Basierend auf den erfassten Daten wird eine Korrelation zwischen den resultierenden Schwingungsamplituden und den Zeitparametern der Aufnahmesequenz hergestellt und experimentell verifiziert. Eine wichtige Erkenntnis ist, dass die untersuchten Strukturen ein unterdämpftes Verhalten zeigen und damit resonant schwingen können. Darüber hinaus wird eine neue Kennzahl eingeführt, anhand derer die Wechselwirkung des Implantats auf Vibrationen klassifiziert werden können. Die Kennzahl gibt das normierte induzierte Drehmoment an, und ermöglicht eine einfache Berechnung des maximal zu erwartenden Drehmomoments auf jedem MRT-System. Somit können die zu erwartenden Maximalamplituden unkompliziert und für jedes System direkt ermittelt werden. Eine anderes Forschungsgebiet, die in-situ-Kernspinspektroskopie und -MRT von biologischen Untersuchungsobjekten im Hochfeld, erfordert eine neuartige MR-Messsonde sowie verbesserte MR-kompatible Substrate für die Zellkultivierung. Eine MR-Sonde mit flexibler Schnittstelle wurde entwickelt. Die endgültige Version ist mit zwei HF-Kanälen und einer Gradientenschnittstelle für flüssiggekühlte Gradienten ausgestattet. Ein Leistungsbewertung wurde mittels Standard-NMR/MRT-Experimenten durchgeführt, die eine Linienbreite von 0,5 Hz und ein mit kommerziellen Messsystem vergleichbares Signal-Rausch-Verhältnis ergaben. Der Vorteil liegt in dem integrierten Durchführungssystem innerhalb des mechanischen Rahmens. Dies bietet eine einfache Methode, zur spezifischen Erweiterung der Messsonde unter Verwendung zusätzlicher elektrischer, optischer und fluidischer Versorgungsleitungen. Auf dieser Basis können spezifische, komplexe experimentelle Hochfeld-NMR/MRT-Aufbauten in kurzer Zeit realisiert werden, ohne Bedarf nach maßgeschneiderten, teuren Sonden. Als Referenz werden zwei Messaufbauen präsentiert, bei ersterem wird die Sonde für ein Öl-Wasser-Fluidikexperiment und bei dem zweitem, in einem wasserstoffbasierten Hyperpolarisationsexperiment eingesetzt. Darüber hinaus wird ein neuartiges, MR-kompatibles 3D-Zellsubstrat basierend auf Kohlenstoff vorgestellt, das erfolgreich auf Zellwachstum und MR-Bildgebung getestet wurde. Die MRT dient des Weiteren als Analysewerkzeug, um die Erhaltung der Morphologie während der Pyrolyse zu untersuchen und zu bestätigen. Das Herstellungsprotokoll ist auf andere Vorläuferpolymere anwendbar, die den Weg zu einer Vielzahl von lithografisch strukturierten 3D-Gerüsten ebnen

The investigation of Optical Coherence Tomography as a clinical tool to determine the extent of Molar Incisor Hypomineralisation (MIH) Lesions

Molar incisor hypomineralisation (MIH) is associated with abnormal mineralisation of enamel during tooth development. It is probably related to systemic upset during this stage of enamel formation. Diagnosing this condition at an early stage is essential in its management, due to complications such as hypersensitivity, post-eruptive breakdown and rapid carious progression in the affected teeth. The current diagnostic measures are clinical visual examination with the aid of indices which are used to describe the defects and radiographic examination of the affected teeth. These diagnostic tools have their limitations and therefore there is a need for better diagnostic tools to give more information about the extent of these defects into the enamel. Optical coherence tomography (OCT) was investigated in this project as an alternative diagnostic tool for MIH defects. The aim of this study was to develop the use of OCT in diagnosing the MIH and correlating it with the conventional clinical methods. In addition, OCT was verified with imaging modalities used in investigating the ultrastructure of MIH affected FPMs such as X-ray microtomography (XMT) and synchrotron X-ray diffraction (SXRD). Ethical approval was obtained for the study. Teeth were prepared immediately after collection, and stored in a refrigerator at 4°C until imaged. MIH defects were categorised using the mDDE index, then radiographic images were taken. Teeth then imaged using OCT (VivoSight diagnostic ™) in King’s College London (KCL) Dental Institute where each surface was scanned separately. Teeth were taken to the Dental Physical Science Department, Queen Mary University of London (QMUL) were they were imaged using XMT (MuCat 2 scanner™). They were sectioned into thin sections of 300µm thick and polished down to 220-250µm. SXRD was done on these sections on the BM28 (XMaS) beamline at the European Synchrotron Radiation Facility (ESRF), Grenoble, France and enamel diffraction patterns were obtained. The incident light from OCT behaved differently when compared between control and MIH enamel as well as when different types of MIH defects were compared. More details about the ultrastructure of enamel and the extent of the MIH lesions were obtained from OCT images when compared to clinical examination using mDDE index and radiographs. An association between the OCT Images and the mineral density, obtained from XMT, was found. However, there was no change in enamel crystal orientation between MIH and healthy enamel, but the magnitude of the enamel crystal organisation was different in both types. Optical Coherence Tomography proved to be a potential diagnostic tool in determining the extent of MIH defects and both XMT and SXRD helped in understanding OCT imaging

Earth Observation Data, Processing and Applications. Volume 2A. Processing - Basic Image Operations

Eds. Harrison, B.A., Jupp, D.L.B., Lewis, M.M, Sparks, T., Phinn, S.F., Mueller, N., Byrne, G

A fluorescent reporter system enables spatiotemporal analysis of host cell modification during herpes simplex virus-1 replication.

Herpesviruses are large and complex viruses that have a long history of coevolution with their host species. One important factor in the virus-host interaction is the alteration of intracellular morphology during viral replication with critical implications for viral assembly. However, the details of this remodeling event are not well understood, in part because insufficient tools are available to deconstruct this highly heterogeneous process. To provide an accurate and reliable method of investigating the spatiotemporal dynamics of virus-induced changes to cellular architecture, we constructed a dual-fluorescent reporter virus that enabled us to classify four distinct stages in the infection cycle of herpes simplex virus-1 at the single cell level. This timestamping method can accurately track the infection cycle across a wide range of multiplicities of infection. We used high-resolution fluorescence microscopy analysis of cellular structures in live and fixed cells in concert with our reporter virus to generate a detailed and chronological overview of the spatial and temporal reorganization during viral replication. The highly orchestrated and striking relocation of many organelles around the compartments of secondary envelopment during transition from early to late gene expression suggests that the reshaping of these compartments is essential for virus assembly. We furthermore find that accumulation of HSV-1 capsids in the cytoplasm is accompanied by fragmentation of the Golgi apparatus with potential impact on the late steps of viral assembly. We anticipate that in the future similar tools can be systematically applied for the systems-level analysis of intracellular morphology during replication of other viruses