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Displaying Results 1 - 25 of 611 on page 1 of 25
Marked
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Columnar to Equiaxed Transition in Peritectic TiAl Based Alloy Studied by a Power-Down Technique
(2014)
MOONEY, ROBIN
Columnar to Equiaxed Transition in Peritectic TiAl Based Alloy Studied by a Power-Down Technique
(2014)
MOONEY, ROBIN
http://hdl.handle.net/2262/76206
Marked
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An investigation into Bridgman furnace solidification of titanium alloys
(2013)
MOONEY, ROBIN; MCFADDEN, SHAUN
An investigation into Bridgman furnace solidification of titanium alloys
(2013)
MOONEY, ROBIN; MCFADDEN, SHAUN
http://hdl.handle.net/2262/75677
Marked
Mark
7B7: a novel antibody directed against the Ku70/Ku80 heterodimer blocks invasion in pancreatic and lung cancer cells
(2014)
O'Sullivan, Dermot; Henry, Michael; Joyce, Helena; Walsh, Naomi; Mc Auley, Edel; D...
7B7: a novel antibody directed against the Ku70/Ku80 heterodimer blocks invasion in pancreatic and lung cancer cells
(2014)
O'Sullivan, Dermot; Henry, Michael; Joyce, Helena; Walsh, Naomi; Mc Auley, Edel; Dowling, Paul; Swan, Niall; Moriarty, Michael; Barnham, Paul; Clynes, Martin; Larkin, Annemarie
Abstract:
Development of more effective therapeutic strategies for cancers of high unmet need requires the continued discovery of disease-specific protein targets for therapeutic antibody targeting. In order to identify novel proteins associated with cancer cell invasion/metastasis, we present here an alternative to antibody targeting of cell surface proteins with an established role in invasion; our functional antibody screening approach involves the isolation and selection of MAbs that are primarily screened for their ability to inhibit tumour invasion. A clonal population of the Mia PaCa-2, a pancreatic ductal adenocarcinoma (PDAC) cell line, which displays a highly invasive phenotype, was used to generate MAbs with the objective of identifying membrane targets directly involved in cancer invasion. Selected MAb 7B7 can significantly reduce invasion in a dose-responsive manner in Mia PaCa-2 clone 3 and DLKP-M squamous lung carcinoma cells. Using immunoprecipitation and liquid chromatography...
http://eprints.maynoothuniversity.ie/6927/
Marked
Mark
A 100dB SFDR 0.5V pk-pk band-pass DAC implemented on a low voltage CMOS process
(2012)
Mullane, Brendan; O'Brien, Vincent
A 100dB SFDR 0.5V pk-pk band-pass DAC implemented on a low voltage CMOS process
(2012)
Mullane, Brendan; O'Brien, Vincent
Abstract:
Direct Digital Synthesis (DDS) systems generate fine frequency resolution signals over a broad spectrum that are used in a wide variety of applications such as multi-mode RF, communications, measurements and test. A high performance DDS band-pass Digital to Analog Converter (DAC) architecture and implementation is presented that delivers high spectral purity over a narrow-band response. The low power D/A Converter is portable to standard CMOS processes and designed to achieve over 100dB narrow-band SFDR performance using Sigma-Delta (ΣΔ) modulation and multi-bit current steering techniques. A 3rd order digital ΣΔ modulator is combined with a 4th order digital Dynamic Element Matching (DEM) block to shape the noise while calibrating for process mismatch variations. A low silicon area output stage is used to deliver a high performance specification.
ACCEPTED
Peer reviewed
http://hdl.handle.net/10344/5652
Marked
Mark
A Bayesian approach to comparing theoretic models to observational data: A case study from solar flare physics
(2011)
GALLAGHER, PETER THOMAS
A Bayesian approach to comparing theoretic models to observational data: A case study from solar flare physics
(2011)
GALLAGHER, PETER THOMAS
Abstract:
Solar flares are large-scale releases of energy in the solar atmosphere, which are characterized by rapid changes in the hydrodynamic properties of plasma from the photosphere to the corona. Solar physicists have typically attempted to understand these complex events using a combination of theoretical models and observational data. From a statistical perspective, there are many challenges associated with making accurate and statistically significant comparisons between theory and observations, due primarily to the large number of free parameters associated with physical models. This class of ill-posed statistical problem is ideally suited to Baysian methods. In this paper, the solar flare studied by Raftery et al. (2008) is reanalysed using a Baysian framework. This enables us to study the evolution of the flare's temperature, emission measure and energy loss in a statistically self-consistent manner. The Baysian-based techniques confirm that both conductive and non-thermal bea...
http://hdl.handle.net/2262/59497
Marked
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A bioactive metallurgical grade porous silicon-polytetrafluoroethylene sheet for guided bone regeneration applications
(2014)
Chadwick, Edward G.; Clarkin, O.M.; Raghavendra, R.; Tanner, David A.
A bioactive metallurgical grade porous silicon-polytetrafluoroethylene sheet for guided bone regeneration applications
(2014)
Chadwick, Edward G.; Clarkin, O.M.; Raghavendra, R.; Tanner, David A.
Abstract:
The properties of porous silicon make it a promising material for a host of applications including drug delivery, molecular and cell-based biosensing, and tissue engineering. Porous Silicon has previously shown its potential for the controlled release of pharmacological agents and in assisting bone healing. Hydroxyapatite, the principle constituent of bone, allows osteointegration in vivo, due to its chemical and physical similarities to bone. Synthetic hydroxyapatite is currently applied as a surface coating to medical devices and prosthetics, encouraging bone in-growth at their surface & improving osseointegration. This paper examines the potential for the use of an economically produced porous silicon particulate-polytetrafluoroethylene sheet for use as a guided bone regeneration device in periodontal and orthopaedic applications. The particulate sheet is comprised of a series of microparticles in a polytetrafluoroethylene matrix and is shown to produce a stable hydroxyapatit...
http://hdl.handle.net/10344/3976
Marked
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A Bridgman Furnace Front Tracking Model
(2015)
Mooney, Robin Patrick
A Bridgman Furnace Front Tracking Model
(2015)
Mooney, Robin Patrick
Abstract:
The Bridgman furnace is widely used in industry and research, mainly because it provides a means to directionally solidify materials in a controlled manner, so that the resulting microstructure, and hence material properties, can be manipulated. This thesis details, firstly, the development and verification of a numerical Front Tracking Model (FTM) to track the position of, and growth conditions at, the columnar front during transient directional solidification in a Bridgman furnace; and, secondly, its application to experiments investigating Columnar to Equiaxed Transition (CET) in a gamma TiAl multicomponent hypoperitectic alloy. Previous FTMs have been applied in fixed grid numerical domains where the solidifying material - normally of hypoeutectic composition - is contained within that domain throughout simulations; the model demonstrated here accounts for movement of material through the domain and is adapted for hypoperitectic solidification. The model is applied, firstly, to ...
http://hdl.handle.net/2262/74991
Marked
Mark
A companding approach for nonuniform quantization of digital holograms of three-dimensional objects
(2006)
Shortt, Alison; Naughton, Thomas J.; Javidi, Bahram
A companding approach for nonuniform quantization of digital holograms of three-dimensional objects
(2006)
Shortt, Alison; Naughton, Thomas J.; Javidi, Bahram
Abstract:
We apply two novel nonuniform quantization techniques to digital holograms of three-dimensional real-world objects. Our companding approach, combines the efficiency of uniform quantization with the improved performance of nonuniform quantization. We show that the performance of companding techniques can be comparable with k-means clustering and a competitive neural network, while only requiring a single-pass processing step. The quantized holographic pixels are coded using lossless techniques for the calculation of compression ratio.
http://eprints.maynoothuniversity.ie/8628/
Marked
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A comparative study of the structural, mechanical and tribological characteristics of TiSiC-Cr coatings prepared in CH4 and C2H2 reactive atmosphere by cathodic vacuum arc
(2017)
Braic, Mariana; Vladescu, Alina; Balaceanu, Mihai; Luculescu, Catalin; Padmanabhan, Sib...
A comparative study of the structural, mechanical and tribological characteristics of TiSiC-Cr coatings prepared in CH4 and C2H2 reactive atmosphere by cathodic vacuum arc
(2017)
Braic, Mariana; Vladescu, Alina; Balaceanu, Mihai; Luculescu, Catalin; Padmanabhan, Sibu C.; Constantin, Lidia; Morris, Michael A.; Braic, Viorel; Grigorescu, Cristiana E. A.; Ionescu, Paul; Dracea, Maria Diana; Logofatu, Constantin
Abstract:
TiSiC-Cr coatings, with Cr and Si as additional elements, were deposited on Si, C 45 and 316 L steel substrates via cathodic arc evaporation. Two series of coatings with thicknesses in the range of 3.6–3.9 μm were produced, using either CH4 or C2H2 as carbon containing gas. For each series, different coatings were prepared by varying the carbon rich gas flow rate between 90 and 130 sccm, while maintaining constant cathode currents (110 and 100 A at TiSi and Cr cathodes, respectively), substrate bias (–200 V) and substrate temperature (∼320 °C). The coatings were analyzed for their mechanical characteristics (hardness, adhesion) and tribological performance (friction, wear), along with their elemental and phase composition, chemical bonds, crystalline structure and cross-sectional morphology. The coatings were found to be formed with nano-scale composite structures consisting of carbide crystallites (grain size of 3.1–8.2 nm) and amorphous hydrogenated carbon. The experimental result...
http://hdl.handle.net/10468/3460
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A Comparison of Ensemble and Case-Base Maintenance Techniques for Handling Concept Drift in Spam Filtering
(2005)
Delany, Sarah Jane; Cunningham, Padraig; Tsymbal, Alexey
A Comparison of Ensemble and Case-Base Maintenance Techniques for Handling Concept Drift in Spam Filtering
(2005)
Delany, Sarah Jane; Cunningham, Padraig; Tsymbal, Alexey
Abstract:
TCD-CS-2005-19
The problem of concept drift has recently received considerable attention in machine learning research. One important practical problem where concept drift needs to be addressed is spam filtering. The literature on concept drift shows that among the most promising approaches are ensembles and a variety of techniques for ensemble construction has been proposed. In this paper we consider an alternative lazy learning approach to concept drift whereby a single case-based classifier for spam filtering keeps itself up-to-date through a case-base maintenance protocol. We present an evaluation that shows that the case-base maintenance approach is more effective than a variety of ensemble techniques. The evaluation is complicated by the overriding importance of False Positives (FPs) in spam filtering. The ensemble approaches can have very good performance on FPs because it is possible to bias an ensemble more strongly away from FPs than it is to bias the single classifer. ...
http://hdl.handle.net/2262/13439
Marked
Mark
A computational model of counterfactual thinking: The temporal order effect
(2001)
BYRNE, RUTH MARY JOSEPHINE
A computational model of counterfactual thinking: The temporal order effect
(2001)
BYRNE, RUTH MARY JOSEPHINE
Abstract:
People generate counterfactual alternatives to realitywhen they think about how things might have happeneddifferently, 'if only?'. There are considerableregularities in the sorts of past events that peoplementally undo, for example, they tend to mentally undothe most recent event in an independent sequence.Consider a game in which two contestants will win#1000 if they both pick cards from the same color suite.The first player picks black and the second red and theylose. Most people spontaneously undo the outcome bythinking, if only the second player had picked black. Wedescribe a computational model that simulates our theoryof the mental representations and cognitive processesunderlying this temporal order effect. The computermodel is corroborated by tests of the novel predictions ofour theory: it should be possible to reverse the temporalorder effect by manipulating the way in which thewinning conditions are described.
http://hdl.handle.net/2262/39493
Marked
Mark
A demonstration of wireless sensing for long-term monitoring of water quality
(2009)
Regan, Fiona; Lawlor, Antoin; O'Flynn, Brendan; Torres-Sanchez, Javier; Martínez-C...
A demonstration of wireless sensing for long-term monitoring of water quality
(2009)
Regan, Fiona; Lawlor, Antoin; O'Flynn, Brendan; Torres-Sanchez, Javier; Martínez-Català, Rafael V.; Ó Mathúna, S. Cian; Wallace, John
Abstract:
At a time when technological advances are providing new sensor capabilities, novel network capabilities, long-range communications technologies and data interpreting and delivery formats via the World Wide Web, we never before had such opportunities to sense and analyse the environment around us. However, the challenges exist. While measurement and detection of environmental pollutants can be successful under laboratory-controlled conditions, continuous in-situ monitoring remains one of the most challenging aspects of environmental sensing. This paper describes the development and test of a multi-sensor heterogeneous real-time water monitoring system. A multi-sensor system was deployed in the River Lee, County Cork, Ireland to monitor water quality parameters such as pH, temperature, conductivity, turbidity and dissolved oxygen. The R. Lee comprises of a tidal water system that provides an interesting test site to monitor. The multi-sensor system set-up is described and results o...
http://hdl.handle.net/10468/180
Marked
Mark
A disciplined innovation approach to health technology solutions
(2017)
Carroll, Noel; Richardson, Ita
A disciplined innovation approach to health technology solutions
(2017)
Carroll, Noel; Richardson, Ita
Abstract:
Despite the potential of innovation-driven healthcare technology services to increase the quality, accessibility and quality of care, the realization and success of such promise has yet to be achieved. This prompted us to explore the barriers towards success for healthcare software companies and examine what frameworks are employed across industry to support their growth in the digital healthcare market. As part of a three-phase study, this article reports on the first phase -to synthesize the literature on the readiness factors for healthcare technology companies. The findings of this research will guide our second phase of this research in surveying industry healthcare software companies. In so doing, we can establish readiness factors for healthcare software companies with a view to offering a more structured and disciplined approach to healthcare innovation.
ACCEPTED
peer-reviewed
http://hdl.handle.net/10344/6384
Marked
Mark
A double prodrug system for colon targeting of benzenesulfonamide COX-2 inhibitors
(2011)
WINDLE, HENRY; GILMER, JOHN FRANCIS; KELLEHER, DERMOT P; KEOGH, BRIAN; REILLY, MARY
A double prodrug system for colon targeting of benzenesulfonamide COX-2 inhibitors
(2011)
WINDLE, HENRY; GILMER, JOHN FRANCIS; KELLEHER, DERMOT P; KEOGH, BRIAN; REILLY, MARY
Abstract:
The design, synthesis and delivery potential of a new type of benzenesulfonamide cyclo-oxygenase-2 (COX-2) inhibitor prodrug is investigated using celecoxib. The approach involves a double prodrug that is activated first by azoreductases and then by cyclization triggering drug release. We studied the intramolecular aminolysis of the acylsulfonamide. The cyclization was surprisingly rapid at physiological pH and very fast at pH 5. The prodrug is activated specifically under conditions found in the colon but highly stable in the presence of human and rodent intestinal extracts. Finally, the prototype with celecoxib was transported much more slowly in the Caco-2 transepithelial model than the parent. The design therefore shows significant promise for the site specific delivery of benzenesulfonamide COX-2 inhibitors to the colon.
http://hdl.handle.net/2262/60695
Marked
Mark
A Front Tracking Model for Transient Solidification of Al-7wt%Si in a Bridgman Furnace
(2012)
MOONEY, ROBIN
A Front Tracking Model for Transient Solidification of Al-7wt%Si in a Bridgman Furnace
(2012)
MOONEY, ROBIN
Abstract:
The Bridgman furnace is widely used in industry and research. This paper outlines a working onedimensional model for tracking the columnar solidification front in a Bridgman furnace where the pulling velocity, and hence front position, change as a function of time. The front tracking model is applied to a fixed grid of control volumes using an explicit numerical finite difference scheme to solve the heat equation over a finite domain. The model is demonstrated by way of a notional scenario, namely, Bridgman furnace solidification of a 16-mm diameter rod of Al?7wt%Si. The results show how the evolution of temperature distribution, thermal history, and front position are affected by a step change in pulling velocity.
http://hdl.handle.net/2262/76203
Marked
Mark
A functional assessment of the sperm membrane: a multi-species approach
(2014)
Murphy, Craig
A functional assessment of the sperm membrane: a multi-species approach
(2014)
Murphy, Craig
Abstract:
A functional sperm membrane is essential for many of the processes which lead to the fertilisation of an oocyte, but this membrane is susceptible to oxidative damage with increasing duration of storage in liquid semen or during the cryopreservation process. The objectives of this thesis were to examine the effects of storage temperature, catalase supplementation and sperm number on the membrane function of liquid stored bull semen, sperm membrane protein profile on the membrane integrity of liquid stored boar semen and stabilisation of the stallion sperm membrane using cholesterol, prior to cryopreservation, on the membrane function of frozen-thawed stallion semen. Sperm progressive motility was assessed by microscopy, glucose consumption and total antioxidant capacity were assessed using commercial kits, and viability, oxidative stress, mitochondrial activity, acrosomal status and membrane fluidity were assessed by flow cytometry. Conception rates in dairy cows were assessed as the...
http://hdl.handle.net/10344/4433
Marked
Mark
A global teaming model for global software development governance: a case study
(2016)
Noll, John; Beecham, Sarah; Richardson, Ita; Nic Cana, Clodagh
A global teaming model for global software development governance: a case study
(2016)
Noll, John; Beecham, Sarah; Richardson, Ita; Nic Cana, Clodagh
Abstract:
Global software development (GSD) is increasingly the norm. As firms expand into new markets overseas, acquire companies in different countries, and recruit talented developers in new locations, projects become distributed by necessity. As projects become increasingly distributed, and include external participants such as outsourcing vendors, conventional top-down management oversight and control becomes more difficult. How can organizations ensure that the activities of all parties involved are aligned with the strategic objectives and values of a software development undertaking? The Global Teaming Model is a framework that specifies practices and recommendations for Global Software Development. As such, it serves as a means to organize GSD practices relevant to Software Development Governance. We conducted a case study of a small team engaged in Global Software Development, identifying governance shortcomings. Then, we used the Global Teaming Model to identify governance practice...
http://hdl.handle.net/10344/5833
Marked
Mark
A high-density ERP study reveals latency, amplitude, and topographical differences in multiple sclerosis patients versus controls.
(2010)
REILLY, RICHARD; KIISKI, HANNI; NOLAN, HUGH; WHELAN, ROBERT
A high-density ERP study reveals latency, amplitude, and topographical differences in multiple sclerosis patients versus controls.
(2010)
REILLY, RICHARD; KIISKI, HANNI; NOLAN, HUGH; WHELAN, ROBERT
Abstract:
Objective. To quantify latency, amplitude and topographical differences in event-related potential (ERP) components between multiple sclerosis (MS) patients and controls and to compare ERP findings with results from the paced auditory serial addition test (PASAT). Methods. Fifty-four subjects (17 relapsing remitting (RRMS) patients, 16 secondary progressive (SPMS) patients, and 21 controls) completed visual and auditory oddball tasks while data were recorded from 134 EEG channels. Latency and amplitude differences, calculated using composite mean amplitude measures, were tested using an ANOVA. Topographical differences were tested using statistical parametric mapping (SPM). Results. In the visual modality, P2, P3 amplitudes and N2 latency were significantly different across groups. In the auditory modality, P2, N2, and P3 latencies and N1 amplitude were significantly different across groups. There were no significant differences between RRMS and SPMS patients on any ERP component. T...
http://hdl.handle.net/2262/41102
Marked
Mark
A highly miniaturized wireless inertial sensor using a novel 3D flexible circuit
(2009)
Buckley, John; O'Flynn, Brendan; Barton, John; Ó Mathúna, S. Cian
A highly miniaturized wireless inertial sensor using a novel 3D flexible circuit
(2009)
Buckley, John; O'Flynn, Brendan; Barton, John; Ó Mathúna, S. Cian
Abstract:
Purpose - The purpose of this paper is to develop a highly miniaturized wireless inertial sensor system based on a novel 3D packaging technique using a flexible printed circuit (FPC). The device is very suitable for wearable applications in which small size and lightweight are required such as body area network, medical, sports and entertainment applications.Design/methodology/approach - Modern wireless inertial measurement units are typically implemented on a rigid 2D printed circuit board (PCB). The design concept presented here is based around the use of a novel planar, six-faceted, crucifix or cross-shaped FPC instead of a rigid PCB. A number of specific functional blocks (such as microelectromechanical systems gyroscope and accelerometer sensors, microcontroller (MCU), radio transceiver, antenna, etc.) are first assigned to each of the six faces which are each 1 cm2 in area. The FPC cross is then developed into a 1 cm3, 3D configuration by folding the cross at each of five bend...
http://hdl.handle.net/10468/156
Marked
Mark
A holistic overview of software engineering research strategies
(2015)
Stol, Klaas-Jan; Fitzgerald, Brian
A holistic overview of software engineering research strategies
(2015)
Stol, Klaas-Jan; Fitzgerald, Brian
Abstract:
Empirical research studies are the principal mechanism through which the software engineering research community studies and learns from software engineering practice. The focus on empirical studies has increased significantly in the past decade, more or less coinciding with the emergence of evidencebased software engineering, an idea that was proposed in 2004. As a consequence, the software engineering community is familiar with a range of empirical methods. However, while several overviews exist of popular empirical research methods, such as case studies and experiments, we lack a ‘holistic’ view of a more complete spectrum of research methods. Furthermore, while researchers will readily accept that all methods have inherent limitations, methods such as case study are still frequently critiqued for the lack of control that a researcher can exert in such a study, their use of qualitative data, and the limited generalizability that can be achieved. Controlled experiments are seen by...
http://hdl.handle.net/10344/4696
Marked
Mark
A Lightweight Assessment Method for Medical Device Software Processes
(2014)
McCaffery, Fergal; Clarke, Paul; Lepmets, Marion
A Lightweight Assessment Method for Medical Device Software Processes
(2014)
McCaffery, Fergal; Clarke, Paul; Lepmets, Marion
Abstract:
This paper outlines the MDevSPICE-Adept process assessment method. MDevSPICE-Adept is a lightweight process assessment method that has been created for the MDevSPICE® software process assessment model which is currently being developed for the medical device industry. MDevSPICE® is a fully validated release of a medical device software process assessment model (formerly known as Medi SPICE), which was developed by the authors. While the MDevSPICE® process assessment model is detailed and comprehensive, there is industry demand for a lightweight medical device software process assessment method. To address this requirement the MDevSPICE-Adept method has been developed. Details on how this has taken place and the procedures for implementing a MDevSPICE-Adept process assessment are presented. Information is also provided regarding how a MDevSPICE® process assessment was undertaken in an Irish based medical device company. A summary of the issues identified from this process assessment ...
http://eprints.dkit.ie/403/
Marked
Mark
A low frequency MEMS energy harvester scavenging energy from magnetic field surrounding an AC current-carrying wire
(2016)
Olszewski, Oskar Zbigniew; Houlihan, Ruth; Mathewson, Alan; Jackson, Nathan
A low frequency MEMS energy harvester scavenging energy from magnetic field surrounding an AC current-carrying wire
(2016)
Olszewski, Oskar Zbigniew; Houlihan, Ruth; Mathewson, Alan; Jackson, Nathan
Abstract:
This paper reports on a low frequency piezoelectric energy harvester that scavenges energy from a wire carrying an AC current. The harvester is described, fabricated and characterized. The device consists of a silicon cantilever with integrated piezoelectric capacitor and proof-mass that incorporates a permanent magnet. When brought close to an AC current carrying wire, the magnet couples to the AC magnetic field from a wire, causing the cantilever to vibrate and generate power. The measured average power dissipated across an optimal resistive load was 1.5 μW. This was obtained by exciting the device into mechanical resonance using the electro-magnetic field from the 2 A source current. The measurements also reveal that the device has a nonlinear response that is due to a spring hardening mechanism.
http://hdl.handle.net/10468/3322
Marked
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A low-cost, portable optical sensing system with wireless communication compatible of real-time and remote detection of dissolved ammonia
(2016)
Deng, Shijie; Doherty, William; McAuliffe, Michael AP; Salaj-Kośla, Urszula; Lewis, Lia...
A low-cost, portable optical sensing system with wireless communication compatible of real-time and remote detection of dissolved ammonia
(2016)
Deng, Shijie; Doherty, William; McAuliffe, Michael AP; Salaj-Kośla, Urszula; Lewis, Liam; Huyet, Guillaume
Abstract:
A low-cost and portable optical chemical sensor based ammonia sensing system that is capable of detecting dissolved ammonia up to 5 ppm is presented. In the system, an optical chemical sensor is designed and fabricated for sensing dissolved ammonia concentrations. The sensor uses eosin as the fluorescence dye which is immobilized on the glass substrate by a gas-permeable protection layer. A compact module is developed to hold the optical components, and a battery powered micro-controller system is designed to read out and process the data measured. The system operates without the requirement of laboratory instruments that makes it cost effective and highly portable. Moreover, the calculated results in the system can be transmitted to a PC wirelessly, which allows the remote and real-time monitoring of dissolved ammonia.
PUBLISHED
peer-reviewed
http://hdl.handle.net/10344/5475
Marked
Mark
A method to predict residues conferring functional differences between related proteins: application to MAP kinase pathways
(2000)
O'NEILL, LUKE ANTHONY JOHN
A method to predict residues conferring functional differences between related proteins: application to MAP kinase pathways
(2000)
O'NEILL, LUKE ANTHONY JOHN
Abstract:
peer-reviewed
Physicochemical properties are potentially useful in predicting functional differences between aligned protein subfamilies. We present a method that considers physicochemical properties from ancestral sequences predicted to have given rise to the subfamilies of interest by gene duplication. Comparison between two map kinases subfamilies, p38 and ERK, revealed a region that had an excess of change in properties after gene duplication followed by conservation within the two subfamilies. This region corresponded to that experimentally defined as important for substrate and pathway specificity. The derived scores for the region of interest were found to differ significantly in their distribution compared to the rest of the protein when the Kolmogorov-Smirnov test was applied (p = 0.005). Thus, the incorporation of ancestral physicochemical properties is useful in predicting functional differences between protein subfamilies. In addition, the method was applied to the M...
http://hdl.handle.net/2262/33702
Marked
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A note on the evaluation of a beta-casein variant in bovine breeds by allele-specific PCR and relevance to β-casomorphin
(2008)
Keating, A.F.; Smith, T.J.; Ross, R Paul; Cairns, M.T.
A note on the evaluation of a beta-casein variant in bovine breeds by allele-specific PCR and relevance to β-casomorphin
(2008)
Keating, A.F.; Smith, T.J.; Ross, R Paul; Cairns, M.T.
Abstract:
This work was supported by Enterprise Ireland and by a Teagasc Walsh fellowship to A.F. Keating.
Two genetic variants of the bovine β-casein gene (A1 and B) encode a histidine residue at codon 67, resulting in potential liberation of a bioactive peptide, β-casomorphin, upon digestion. An allele-specific PCR (AS-PCR) was evaluated to distinguish between the β-casomorphin-releasing variants (A1 and B) and the non-releasing variants. AS-PCR successfully distinguished β-casein variants in 41 of 42 animals as confirmed by sequence analysis. Overall, while the incidence of the homozygous A1 and B animals (i.e., homozygous for the histidine residue; 21.4%) was lower than that for animals without the histidine residue (30.9% respectively), 69% of animals carried at least one allele for the histidine residue at codon 67.
http://hdl.handle.net/11019/632
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