Pre-cellularised scaffolds are limited in volume due to the constraints of the time delay required for angiogenic cells ingrowth forming a vascular network and allowing for delivery of nutrients and waste exchange. Channels have the potential to improve the time taken for cellular penetration. The effectiveness of channels in improving angiogenic cells penetration was assessed in vitro and in vivo in porous 3-D collagen scaffolds. Initial studies conducted in vitro demonstrated that the scaffolds supported angiogenic cells ingrowth in culture and the channels improved the depth of penetration of cells into the scaffold. The cells reside mainly around the channels and migrate along the channels. In vivo, channels increased cell migration into the scaffolds and in particular angiogenic cells resulting in a clear branched vascular network of micro vessels in the channelled samples which was not apparent in the non-channelled samples. This correlated well with macrophage invasion into scaffolds since angiogenesis in vivo is usually accompanied by infiltration of macrophages which participate in organization of angiogenesis, and in regulation of tissue regeneration. Thus, macrophage-mediated biodegradation of collagen scaffolds in vitro was also assessed. Furthermore, pre-seeding channelled collagen scaffolds with endothelial cells implantation has potential of speeding up vascularisation of scaffolds compared to human bone marrow stromal cells.

This thesis is concerned with the chemical modification of polymers in the preparation of a library of materials which exhibit altered surface properties as a result of the surface chemical functionality, with particular emphasis on the development of materials that control biofouling and are antibacterial. Chemical modification of crosslinked polystyrene, in film and microsphere form, was carried out by carbene insertion followed by diazonium coupling. This provided access to a collection of materials with varying surface chemistry, whilst the bulk properties of the polystyrene substrates were maintained. Synthesis of the diaryldiazo and the diazonium salts used to perform the surface modifications is described, as well as the preparation and characterisation of the materials. Analysis of the ability of the materials to adsorb and bind the protein bovine serum albumin (BSA) is presented with data obtained from two methods of observation. Quartz Crystal Microbalance with Dissipation (QCM-D) and a protein assay based on the change in optical density of a BSA/PBS solution are used to demonstrate how the specific surface chemistry of the materials influences the ability to adsorb and bind protein. The behaviour of the materials was time dependent and was rationalised with respect to the surface water contact angle and the calculated parameters polar surface area and % polar surface area of the functional groups added to the surfaces. Finally, penicillin loaded materials were prepared and their antibacterial activity was tested against E. coli and S. aureus, demonstrating that the antibiotic is still active from within the polystyrene scaffold.

Maintaining the safe operation of nuclear power plants (NPPs) is crucial. This requires fully understanding the mechanism of long term irradiation and thermal ageing, as well as their effects, on components including the reactor pressure vessel (RPV). The research community is collecting data that will be required to support the case for extending the operation of western-type NPPs beyond that of 60 years. One of the current dilemmas faced by the long-term operation of RPVs is the formation of nanometre scale precipitates. These precipitates are known to cause embrittlement where it increases the ductile-to-brittle transition temperature of the RPV steels. The chemistry of these precipitates is strongly dependent on the chemistry of the RPV steels. In general, these precipitates can be categorised into two types, copper-rich precipitates (CRPs) and manganese-nickel (-enriched) precipitates (MNPs) [1, 2]. The concentration of copper in the precipitates depends on the bulk content of the steel [3]. The formation mechanism of the precipitates under neutron irradiation and thermal ageing, and their influence on material degradation at high neutron fluence (Φt), is still unclear. To understand the long term precipitation under irradiation and thermal ageing, high nickel and copper containing RPV steels with a similar microstructure an chemical composition as those currently in service were subjected to either neutron irradiation (to high neutron fluences, Φt ≥ 5 x 10²³ neutrons.m^-2) or thermal ageing (for as long as ≈ 50,000 hours). CRPs and MNPs were both detected. The co-precipitation of the CRPs and MNPs were observed in thermally aged steels. The development of crystal structures in the CRPs is believed to be dependent on the size of the precipitates and the ambient temperature. When the CRPs reached a critical size, they underwent the martensitic transformation from BCC→9R→3R→FCC or FCT. The CRPs preferentially nucleate heterogeneously at the dislocation lines. Chemical analysis suggests that most of the CRPs are iron free. Under thermal ageing, the MNPs were found to precipitate at the interface of the CRPs and the matrix. These MNPs are found to be iron free too. Larger MNPs were often found to be at CPRs that were associated with dislocation lines. Also, based on the volume fraction observed, it is possible to suggest that the kinetics of nucleation and growth of the MNPs are relatively slow compared to the CRPs. This is in good agreement with the simulations reported in Refs. [4, 5]. It is the first time the MNPs are directly imaged from neutron irradiation low copper steels using electron microscopy. These irradiation-induced MNPs are densely populated in the neutron irradiated samples. It was found that the irradiation-induced MNPs are more sensitive to electron beams. It was thought that this was due to a relatively large amount of point defects present in the irradiation-induced MNPs.

This thesis reports on the chemical vapour deposition (CVD) growth of carbon nanostructures (mainly carbon nanotubes (CNTs)) on perovskite oxide surfaces with the aid of various catalysts. Two types of perovskite oxide, single crystal SrTiO3 (001) and polycrystalline BaSrTiO₃, have been used as catalyst supports (in metal-catalyst-involved CVD routes) or as catalysts (via metal-catalyst-free CVD routes) for the growth of carbon nanostructures. In metal-catalyst-involved cases, SrTiO₃ (001) single crystal has been proven, for the first time, to serve as a substrate for the growth of CNTs. Fe and Ni catalysts can be tailored in a controllable manner on SrTiO3 (001) surfaces prior to the CNT synthesis, forming truncated pyramid shaped nanocrystals with uniform size distributions. The growth of vertically aligned CNT carpets was realised with the aid of Fe on SrTiO₃ (001) surfaces, and it was further found that the CNTs grow via a base growth model. Furthermore, it is possible to grow helical carbon nanostructures on BaSrTiO3 substrates by introducing a Sn catalyst into the system. The synthesised helical carbon nanostructures follow a tip growth mode, where the structural and chemical aspects of catalyst particles gave rise to a wide range of carbon morphologies. CNTs were also grown on single crystal SrTiO₃ (001) and polycrystalline BaSrTiO3 substrates via metal-catalyst-free routes. The surface-roughness-tailored growth of CNTs was surprisingly achieved on a series of engineered SrTiO₃ (001) surfaces, where a correlation between the surface roughness/morphology of the substrates and the relevant catalytic activity was revealed. The growth of CNTs arises because the catalyst fabrication methods lead to the formation of SrTiO₃ asperities with nanoscale curvatures, over which the CNTs are generated throughout a lift-off process. Facet-selective growth of CNTs was observed on polycrystalline BaSrTiO₃ surfaces, where BaSrTiO₃ (110) facets lead to the growth of CNTs on them, whereas the (001) facets result in no growth at all. This observation was further analysed in the content of the adsorption and diffusion of carbon species on distinct BaSrTiO₃ facets, before reaching the conclusion that the formation of CNTs occurs through a metal-free, stack-up process driven by the assembly of the carbon fragments.

In this thesis we describe the extension and implementation of the Sternheimer- GW method to a first-principles pseudopotential framework based on a planewaves basis. The Sternheimer-GW method consists of calculating the GW self-energy operator without resorting to the standard expansion over unoccupied Kohn- Sham electronic states. The Green's function is calculated by solving linear systems for frequencies along the real axis. The screened Coulomb interaction is calculated for frequencies along the imaginary axis using the Sternheimer equa- tion, and analytically continued to the real axis. We exploit novel techniques for generating the frequency dependence of these operators, and discuss the imple- mentation and efficiency of the methodology. We benchmark our implementation by performing quasiparticle calculations on common insulators and semiconductors, including Si, diamond, LiCl, and SiC. Our calculated quasiparticle energies are in good agreement with the results of fully-converged calculations based on the standard sum-over-states approach and experimental data. We exploit the methodology to calculate the spectral func- tions for silicon and diamond and discuss quasiparticle lifetimes and plasmaronic features in these materials. We also exploit the methodology to perform quasiparticle calculations on the 2-dimensional transition metal dichalcogenide system molybdenum disulfide (MoS₂). We compare the quasiparticle properties for bulk and monolayer MoS2 , and identify significant corrections at the GW level to the LDA bandstructure of these materials. We also discuss changes in the frequency dependence of the electronic screening in the bulk and monolayer systems and relate these changes to the quasiparticle lifetimes and spectral functions in the two limits.

Quantum information processing (QIP) has the potential to reduce the complexity of many classically ‘hard’ computational problems. To implement quantum information algorithms, a suitable physical quantum computer architecture must be identified. One approach is to store quantum information in the electron spins of an array of paramagnetic N@C₆₀ endohedral fullerene molecules, using the electron-electron dipolar interaction to permit the formation of the entangled quantum states needed to implement QIP. This thesis explores two different chemical methods to create two-spin centre arrays that contain N@C₆₀. The first method uses a double 2,3 dipolar cycloaddition reaction to a dibenzaldehyde-terminated oligo-p-phenylene polyethynylene (OPE) unit , to create an (S_3/2, S_3/2) N@C₆₀-N@C₆₀ dimer with a fixed spin centre separation of 2.7 nm. The second approach is via a self-assembly scheme in which a Lewis base functionalised N@C₆₀ molecule coordinates to an antiferromagnetic metallic ring magnet to form a (S_3/2, S_3/2) two-spin centre N@C₆₀-Cr₇Ni system with an inter-spin separation of 1.4 nm. In both systems, a significant perturbation of the electron spin transition energies is observed using CW ESR, this perturbation is shown to be well accounted for by the inclusion of an electron-electron dipolar coupling term in the electron spin Hamiltonians. To create entanglement in an ensemble of two-spin centre molecules, the dipolar coupling interaction must lie within a narrow distribution. To achieve this not only the separation but also the orientation of the inter-spin axis with respect to the applied magnetic field must be controlled for which a method of macroscopic alignment is required. The potential of using a uniaxially drawn liquid crystal elastomer to exert uniaxial order on fullerene dimers is tested, finding that the degree of alignment is insufficient, possibly a result of the propensity for the fullerene molecules to phase separate from the elastomer. This phase separation is shown to restrict N@C₆₀ phase coherence lifetime to 1.4 µs at 40 K due to instantaneous spin diffusion. The electron spin environment of both N@C₆₀ and an N@C₆₀-C₆₀ dimer in a polymer matrix is examined using polystyrene as the host matrix. By deuteration of the polystyrene matrix, a maximum phase coherence lifetimes of 48 µs and 21 µs are measured for the N@C₆₀ and N@C₆₀-C₆₀ dimer, respectively. The concept of reading out the electron spin state of N@C₆₀ molecules by coupling it to a spin system that can be probed using optically detected magnetic resonance (ODMR) such as an NV- centre has been previously suggested. To this end, the photostability of N@C₆₀ under 637 nm laser illumination has been examined in solution. The effect of the presence of an atmospheric concentration of oxygen is striking, affording a 57-fold retardation in the photodecomposition of N@C₆₀ compared to a degassed solution. When ambient oxygen is present, the average number of excitations that are required to cause decomposition is ≈60000. Finally, for future UV photophysics experiments involving N@C₆₀, the best solvent to use was found to be decalin, finding that it significantly slowed decomposition of N@C₆₀ in both ambient and degassed solutions. The conclusions of this work make a significant contribution to the field of QIP with N@C₆₀, showing that there is a bright future for N@C₆₀.

The pursuit of high quality, large area graphene has been a major research focus of contemporary materials science research, in the wake of the discovery of the multitude of exceptional properties exhibited by the material. The DPhil project was undertaken with the objective of developing an understanding of the growth of large graphene sheets by chemical vapour deposition (CVD), and also in the subsequent characterisation of their material properties. By conducting atmospheric pressure CVD growth at high methane flow rates, it was found that few-layered graphene (FLG) could be deposited on a copper catalyst. It is demonstrated that the self-limiting property of a copper catalyst is not universal to all deposition conditions, and shown that FLG grows in a terrace-like configuration. In depth transmission electron microscopy (TEM) studies were carried out on FLG. By selective image reconstruction from the inverse power spectrum of the TEM images, it was possible to elucidate the inter-grain connectivity of few-layer graphenes. It was determined that there were two possible inter-grain configurations possible; specifically an overlap of graphene layers or a discrete atomic bonding edge. The perturbation of the few-layer structure when subject to an out of plane distortion was found to incur a shift in the conventional AB-Bernal stacking of FLG. By utilising the aberration corrected TEM (AC-TEM) at Oxford it was possible to resolve atomic detail in CVD synthesised monolayer films, including atomic bond rotations and vacancies. The use of a high current density at low accelerating voltage (80 kV) was demonstrated to allow for the controlled defect creation in graphene sheets. This permitted the creation of monovacancies and iron doped vacancy complexes suitable for further study. The behaviour of these two defect types under electron beam irradiation was subsequently studied.

Titanium (Ti) foams of different densities 1622-4100 Kgm-3 made by a powder sintering technique were studied as to their structural and mechanical properties. The foams were tested under static and dynamic loading. The material was tested quasi statically and dynamically under strain rates in the range of 0.001-2500 s-1 and under different loading modes. It was found that strain rate sensitivity is more pronounced in lower density foams. Experiments were complimented by virtual testing. Based on the Voronoi tessellations a computational method was developed to generate stochastic foam geometries. Statistical control was applied to produce geometries with the microstructural characteristics of the tested material. The generated structures were numerically tested under different loading modes and strain rates. Voronoi polyhedrals were used to form the porosity network of the open cell foams. The virtually generated foams replicated the geometrical features of the experimentally tested material. Meshes for finite element simulations were produced. Existing material models were used for the parent material behaviour (sintered Ti) and calibrated to experiments. The virtual foam geometries of different densities were numerically tested quasi statically under uniaxial, biaxial and triaxial loading modes in order to investigate their macroscopic behaviour. Dynamic loading was also applied for compression. Strain rate sensitive and insensitive models were used for the parent material model in order to examine the influence of geometry and material strain rate sensitivity under high rates of deformation. It was found that inertial effects can enhance the strain rate sensitivity for low density foams and numerical predictions for the generated foam geometries were in very good agreement with experimental results. Power laws were established in scaling material properties with density. The study includes: 1. Information on the material behaviour and data for macroscopically modelling this type of foams for a range of densities and under different strain rates. 2. A proposed method for virtually generating foam geometries at a microscopic scale and examine the effect of geometrical characteristics on the macroscopic behaviour of foams.

Peptide tags are ubiquitous in the life sciences, with roles including purification and selective labeling of proteins. Because peptide tags are small they have a limited surface area for binding and hence usually form low affinity protein interactions. These weak interactions limit the uses of peptide tags in cases that require resistance to forces generated with macromolecular architectures or protein motors. Hence a way to create a covalent interaction with a peptide tag would be useful. It was found possible to create a covalent bond-forming peptide tag using the spontaneous isopeptide chemistry of the CnaB2 domain from the Gram-positive bacterium Streptococcus pyogenes. In the CnaB2 domain a reactive Lysine forms an isopeptide bond with an Aspartic acid, catalyzed by a Glutamic acid, creating an internal covalent linkage. Subsequently it was shown that the CnaB2 domain could be split into two parts, a domain with the Lysine and Glutamic acid called SpyCatcher and a peptide with the Aspartic acid called SpyTag, such that the isopeptide covalent linkage can be formed when SpyCatcher/SpyTag are mixed together. SpyCatcher/SpyTag was applied in this thesis and showed functionality in a wide array of scenarios. SpyCatcher/SpyTag covalently linked within the cytosol of E. coli, on surface membrane proteins of HeLa cells, and regardless of whether SpyTag was located on the N- or C-terminus or an internal site. Crystal structures of SpyCatcher/SpyTag were then obtained and it was found possible to shrink the SpyCatcher by 32 residues to a core domain of 83 residues. To create an even smaller covalent linkage system, SpyCatcher was split further to generate a protein (SpyLigase) ligating two peptide tags. The β-sheet with the reactive Lysine was removed from SpyCatcher and called KTag. SpyLigase could covalently link SpyTag and KTag. SpyLigase-induced ligation was independent of the location of SpyTag/KTag on the target proteins and was applied to create affibody polymers, which were shown to improve magnetic isolation of cells with low tumor antigen expression. Through this work protein-protein covalent linkage systems were refined and generated that have future applications for the creation of unique macromolecular structures, cellular labeling, and protein cyclization.

The development of interatomic potentials for magnetic transition metals, and particularly for iron, is difficult, yet it is also necessary for large-scale atomistic simulations of industrially important iron and steel alloys. The magnetism of iron is especially important as it is responsible for many of the element's unique physical properties -- its bcc ground state structure, its high-temperature phase transitions, and the mobility of its self-interstitial atom (SIA) defects. Yet an accurate description of itinerant magnetism within a real-space formalism is particularly challenging and existing interatomic potentials based on the Embedded Atom Method are suited only for studies of near-equilibrium ferritic iron, due to their restricted functional forms. For this work, the magnetic analytic Bond-Order Potential (BOP) method has been implemented in full to test the convergence properties in both collinear and non-collinear magnetic iron. The known problems with negative densities of states (DOS) are addressed by assessing various possible definitions for the bandwidth and by including the damping factors adapted from the Kernel Polynomial Method. A 9-moment approximation is found to be sufficient to reproduce the major structural energy differences observed in Density Functional Theory (DFT) and Tight Binding (TB) reference calculations, as well as the volume dependence of the atomic magnetic moments. The Bain path connecting bcc and fcc structures and the formation energy of mono- and divacancies are also described well at this level of approximation. Other quantities such as the high-spin/low-spin transition in fcc iron, the bcc elastic constants and the SIA formation energies converge more slowly towards the TB reference data. The theory of non-collinear magnetism within analytic BOP is extended as required for a practical implementation. The spin-rotational behaviour of the energy is shown to converge more slowly than the collinear bulk energy differences, and there are specific problems at low angles of rotation where the magnitude of the magnetic moment depends sensitively on the detailed structure of the local DOS. Issues of charge transfer in relation to magnetic defects are discussed, as well as inadequacies in the underlying d-electron TB model.