Master of Science

thesisILIAD is a microcomputer based program that has been developed to facilitate the construction and management of bibliographic knowledge bases. The contents of these knowledge bases are selected bibliographic citations to the literature. The knowledge base contents are organized by knowledge models that permit access to and the retrieval of relevant information. A knowledge structure referred to as a 'relation' is the fundamental unit of this knowledge model. It is shown that conceptual networks of relations may be built and utilized to perform high quality, efficient information queries of the knowledge base. Quality and efficiency are assessed by the measures of recall and precision, functions of the general relevance of information retrieved, and time

Modified nucleic acids: structural studies and applications in biosensing

The modification of natural nucleic acids or synthesis of novel DNA mimics can facilitate new structure, function and properties. In particular, the use of modified nucleic acids for applications in biosensing has become a popular field of study given the desire for rapid and reliable theranostic devices. The aim of the projects detailed in this thesis was to study a range of DNA modifications, with a view to gaining an enhanced understanding of their effects on DNA structure, but also on their ability to act as sensing platforms for the extraction of important biological information stored within DNA targets. The four projects discussed include: organometallic mimics of DNA based on ferrocene (FcNA) and corresponding FcNA-DNA conjugates and their effect on structure; FcNA-DNA conjugates that bind mercury; redox-active macrocycles incorporated into DNA as SNP sensors and DNA labeled virus particles that probe the presence of pathogens via a bionanoparticle supported PCR reaction which can be monitored by Linear Dichroism spectroscopy

Four-shooter: a large format charge-coupled-device camera for the Hale telescope

We describe an astronomical camera for the 200-in. Hale telescope using four 800 X800 Texas Instruments CCDs in an optical arrangement that allows imaging of a contiguous 1600-pixel-square region of sky. The system employs reimaging optics to yield a scale of 0.33 arcsec per pixel, a good match to the best seeing conditions at Palomar Observatory. Modern high-efficiency coatings are used in the complex optical system to yield a throughput at peak efficiency of nearly 50% (including the losses in the telescope), corresponding to a quantum efficiency on the sky of about 30%. The system uses a fifth CCD in a spectroscopic channel, and it is possible to obtain simultaneous imaging and spectroscopic observations with the system. The camera may also be used in a scanning mode, in which the telescope tracking rate is offset, and the charge is clocked in the chips in such a manner as to keep the charge image aligned with the optical image. In this way, a survey for high-redshift quasars has been carried out over a large area of sky. The instrument has produced images for the most distant clusters of galaxies yet discovered as well as spectra of the most distant galaxies yet observed

Polymerase chain reaction on a viral nanoparticle

The field of synthetic biology includes studies that aim to develop new materials and devices from biomolecules. In recent years much work has been carried out using a range of biomolecular chassis including α-helical coiled coils, α-sheet amyloids and even viral particles. In this work we show how hybrid bionanoparticles can be produced from a viral M13 bacteriophage scaffold through conjugation to DNA primers that can template a polymerase chain reaction (PCR). This unprecedented example of a PCR on a virus particle has been studied by flow aligned linear dichroism spectroscopy, which gives information on the structure of the product as well as a new protototype methodology for DNA detection. We propose that this demonstration of PCR on the surface of a bionanoparticle is a useful addition to ways in which hybrid assemblies may be constructed using synthetic biology

Eyes, ears and technology : an evaluation of the use of video-conferencing in BPR workshops

Purpose: The purpose of this paper is to evaluate the effectiveness of video-conferencing as a suitable technology for business process reengineering (BPR) training of 12 health sector participants located in Prince Edward Island, Canada. Design/methodology/approach: An action research was adopted. The participants received training from a remote BPR consultant located in Northern Ireland (UK), with the assistance of local moderators. The focus of the study is concerned with the quality of the learning experience and the important role played by local moderators. Findings: Overall, the use of video-conferencing technology provided a valuable learning experience. It was also cost effective and an efficient use of both the consultants' and the participants' time. A key part of the success of the exercise was the role of one of the local moderators who acted as the eyes and ears of the consultant. Originality/value: A general contribution to knowledge is the positioning of the argument developed within the technology diffusion literature. The paper offers important insights into the effective use of video-conferencing technology for BPR training purposes; and Knipe and Lee's evaluation of a video-conferencing experiment in terms of the relationship between the human actors at the remote and local sites is discussed and extended

A blinded, randomized, controlled trial assessing conservative management strategies for frozen shoulder

BACKGROUND: There is little evidence for the optimal form of nonoperative treatment in the management of frozen shoulder. This study assesses the efficacy of current physiotherapy strategies. METHODS: All primary care referrals of frozen shoulder to our physiotherapy department were included during a 12-month period. Of these referrals, 17% met the inclusion criteria for primary idiopathic frozen shoulder. The 75 patients were randomly assigned to 1 of 3 groups: group exercise class, individual physiotherapy, and home exercises alone. A single independent physiotherapist, who was blinded to the treatment groups, made all assessments. Range of motion, Constant score, Oxford Shoulder Score, Short Form 36, and Hospital Anxiety and Disability Scale (HADS) outcome measures were performed at baseline, 6 weeks, 6 months, and 1 year. RESULTS: The exercise class group improved from a mean Constant score of 39.8 at baseline to 71.4 at 6 weeks and 88.1 at 1 year. There was a significant improvement in shoulder symptoms on Oxford and Constant scores (P < .001). This improvement was greater than with individual physiotherapy or home exercises alone (P < .001). The improvement in range of motion was significantly greater in both physiotherapy groups over home exercises (P < .001). HADS scores significantly improved during the course of treatment (P < .001). The improvement in HADS anxiety score was significantly greater in both physiotherapy intervention groups than in home exercises alone. CONCLUSIONS: A hospital-based exercise class can produce a rapid recovery from a frozen shoulder with a minimum number of visits to the hospital and is more effective than individual physiotherapy or a home exercise program

Animals and Their Unicellular Ancestors

Animals belong to the Opisthokonta, one of the major divisions of the eukaryotic Tree of Life. This supergroup also includes other well?known groups such as fungi and choanoflagellates, in addition to some newly discovered unicellular taxa as the Ichthyosporea or the Filasterea. To unveil the origin of animal multicellularity, it is vital to understand the evolution of their single?celled relatives, as they might hold key genetic clues that might help us understand how the unicellular ancestors of animals became animals. Our current knowledge of unicellular animal relatives, their specific phylogenetic relationships and the role they might play in future research is being improved, thanks to molecular data

Hypotheses for the Origin of the Hypanis Fan-Shaped Deposit at the Edge of the Chryse Escarpment, Mars: Is it a Delta?

We investigated the origin of the fan-shaped deposit at the end of Hypanis Valles that has previously been proposed as an ExoMars, Mars 2020, and human mission candidate landing site, and found evidence that the landform is an ancient delta. Previous work suggests that the deposit originated from a time of fluvial activity both distinct from and prior to catastrophic outflow, and crater counting placed the deposit’s age at  ≥ 3.6 Ga. We found over 30 thin sedimentary strata in the proposed delta wall, and from our slope analysis conclude that the fluvial sequence is consistent with a lowering/retreating shoreline. We measured nearly horizontal bedding dip angles ranging from 0° to 2° over long stretches of cliff and bench exposures seen in HiRISE images and HiRISE stereo DTMs. From THEMIS night IR images we determined that the fan-shaped deposit has a low thermal inertia (150-240 Jm-2 K-1 s-1/2) and the surrounding darker-toned units correspond to thermal inertia values as high as 270-390 Jm-2 K-1 s-1/2. We interpret these findings to indicate that the fan-shaped deposit consists mostly of silt-sized and possibly finer grains, and that the extremely low grade and large lateral extent of these beds implies that the depositional environment was calm and relatively long-lived. We interpret the geomorphology and composition as incompatible with an alluvial fan or mudflow hypothesis. From our stratigraphic mapping we interpret the order of events which shaped the region. After the Chryse impact, sediment filled the basin, a confined lake or sea formed allowing a large delta to be deposited near its shoreline, the water level receded to the north, darker sedimentary/volcanic units covered the region and capped the light-toned deposit as hydro-volcanic eruptions shaped the interior of Lederberg crater, freeze/thaw cycles and desiccation induced local fracturing, and finally wrinkle ridges associated with rounded cones warped the landscape following trends in degraded crater rims and existing tectonic features. The ancient deltaic deposit we observe today was largely untouched by subsequent catastrophic outflows, and its surface has been only moderately reshaped by over 3 billion years of aeolian erosion

What can isolated skeletal muscle experiments tell us about the effects of caffeine on exercise performance?

Caffeine is an increasingly popular nutritional supplement due to the legal, significant improvements in sporting performance that it has been documented to elicit, with minimal side effects. Therefore, the effects of caffeine on human performance continue to be a popular area of research as we strive to improve our understanding of this drug and make more precise recommendations for its use in sport. Although variations in exercise intensity seems to affect its ergogenic benefits, it is largely thought that caffeine can induce significant improvements in endurance, power and strength-based activities. There are a number of limitations to testing caffeine-induced effects on human performance that can be better controlled when investigating its effects on isolated muscles under in vitro conditions. The hydrophobic nature of caffeine results in a post-digestion distribution to all tissues of the body making it difficult to accurately quantify its key mechanism of action. This review considers the contribution of evidence from isolated muscle studies to our understating of the direct effects of caffeine on muscle during human performance. The body of in vitro evidence presented suggests that caffeine can directly potentiate skeletal muscle force, work and power, which may be important contributors to the performance-enhancing effects seen in humans

The Multi-Object, Fiber-Fed Spectrographs for SDSS and the Baryon Oscillation Spectroscopic Survey

We present the design and performance of the multi-object fiber spectrographs for the Sloan Digital Sky Survey (SDSS) and their upgrade for the Baryon Oscillation Spectroscopic Survey (BOSS). Originally commissioned in Fall 1999 on the 2.5-m aperture Sloan Telescope at Apache Point Observatory, the spectrographs produced more than 1.5 million spectra for the SDSS and SDSS-II surveys, enabling a wide variety of Galactic and extra-galactic science including the first observation of baryon acoustic oscillations in 2005. The spectrographs were upgraded in 2009 and are currently in use for BOSS, the flagship survey of the third-generation SDSS-III project. BOSS will measure redshifts of 1.35 million massive galaxies to redshift 0.7 and Lyman-alpha absorption of 160,000 high redshift quasars over 10,000 square degrees of sky, making percent level measurements of the absolute cosmic distance scale of the Universe and placing tight constraints on the equation of state of dark energy. The twin multi-object fiber spectrographs utilize a simple optical layout with reflective collimators, gratings, all-refractive cameras, and state-of-the-art CCD detectors to produce hundreds of spectra simultaneously in two channels over a bandpass covering the near ultraviolet to the near infrared, with a resolving power R = \lambda/FWHM ~ 2000. Building on proven heritage, the spectrographs were upgraded for BOSS with volume-phase holographic gratings and modern CCD detectors, improving the peak throughput by nearly a factor of two, extending the bandpass to cover 360 < \lambda < 1000 nm, and increasing the number of fibers from 640 to 1000 per exposure. In this paper we describe the original SDSS spectrograph design and the upgrades implemented for BOSS, and document the predicted and measured performances.Comment: 43 pages, 42 figures, revised according to referee report and accepted by AJ. Provides background for the instrument responsible for SDSS and BOSS spectra. 4th in a series of survey technical papers released in Summer 2012, including arXiv:1207.7137 (DR9), arXiv:1207.7326 (Spectral Classification), and arXiv:1208.0022 (BOSS Overview