40 results on '"John McCall"'
Search Results
2. Prevalence, management and efficacy of treatment in portal vein obstruction after paediatric liver transplantation: protocol of the retrospective international multicentre PORTAL registry
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Barbara E Wildhaber, Martin de Santibañes, Victoria Ardiles, Ruben H J de Kleine, Raj Prasad, Bhargava Mullapudi, Jai Patel, Reinoud P H Bokkers, Ekkehard Sturm, Simon McGuirk, Girish Gupte, John McCall, Richard J Hendrickson, Winita Hardikar, Helen Evans, Khalid Sharif, Marumbo Mtegha, Amar Mukund, David Duncan, Emmanuel Gonzales, Marco Spada, Mureo Kasahara, Denise Aldrian, Bader A Alfares, Hubert P J van der Doef, Thomas Casswall, Greg Nowak, Martin Delle, Valeria Berchtold, Georg F Vogel, Piotr Kaliciński, Malgorzata Markiewicz-Kijewska, Adam Kolesnik, Jesús Q Bernabeu, María Mercadal Hally, Mauricio Larrarte K, Paolo Marra, Michela Bravi, Domenico Pinelli, Seisuke Sakamoto, Hajime Uchida, Vidyadhar Mali, Marion Aw, Stéphanie Franchi-Abella, Florent Guérin, Guillermo Cervio, Julia Minetto, Sergio Sierre, Jimmy Walker Uno, Steffen Hartleif, Cristina T Ferreira, Luiza S Nader, Marco Farina, Catalina Jaramillo, Manuel I Rodriguez-Davalos, Peter Feola, Amit A Shah, Phoebe M Wood, Michael R Acord, Ryan T Fischer, Rajeev Khanna, Viniyendra Pamecha, Gilda Porta, Tommaso Alterio, Giuseppe Maggiore, Marisa Beretta, and Rudi Dierckx
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Medicine - Abstract
Introduction Portal vein obstruction (PVO) consists of anastomotic stenosis and thrombosis, which occurs due to a progression of the former. The aim of this large-scale international study is to assess the prevalence, current management practices and efficacy of treatment in patients with PVO.Methods and analysis The Portal vein Obstruction Revascularisation Therapy After Liver transplantation registry will facilitate an international, retrospective, multicentre, observational study, with 25 centres around the world already actively involved. Paediatric patients (aged
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- 2023
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3. Persistent opioid use and opioid-related harm after hospital admissions for surgery and trauma in New Zealand: a population-based cohort study
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Peter Jones, Matthew Moore, Amy Hai Yan Chan, Chris Frampton, Doug Campbell, Jiayi Gong, Alan Forbes Merry, Kebede A Beyene, and John McCall
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Medicine - Abstract
Introduction Opioid use has increased globally for the management of chronic non-cancer-related pain. There are concerns regarding the misuse of opioids leading to persistent opioid use and subsequent hospitalisation and deaths in developed countries. Hospital admissions related to surgery or trauma have been identified as contributing to the increasing opioid use internationally. There are minimal data on persistent opioid use and opioid-related harm in New Zealand (NZ), and how hospital admission for surgery or trauma contributes to this. We aim to describe rates and identify predictors of persistent opioid use among opioid-naïve individuals following hospital discharge for surgery or trauma.Methods and analysis This is a population-based, retrospective cohort study using linked data from national health administrative databases for opioid-naïve patients who have had surgery or trauma in NZ between January 2006 and December 2019. Linked data will be used to identify variables of interest including all types of hospital surgeries in NZ, all trauma hospital admissions, opioid dispensing, comorbidities and sociodemographic variables. The primary outcome of this study will be the prevalence of persistent opioid use. Secondary outcomes will include mortality, opioid-related harms and hospitalisation. We will compare the secondary outcomes between persistent and non-persistent opioid user groups. To compute rates, we will divide the total number of outcome events by total follow-up time. Multivariable logistic regression will be used to identify predictors of persistent opioid use. Multivariable Cox regression models will be used to estimate the risk of opioid-related harms and hospitalisation as well as all-cause mortality among the study cohort in a year following hospital discharge for surgery or trauma.Ethics and dissemination This study has been approved by the Auckland Health Research Ethics Committee (AHREC- AH1159). Results will be reported in accordance with the Reporting of studies Conducted using Observational Routinely collected health data statement (RECORD).
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- 2021
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4. ∆133p53 isoform promotes tumour invasion and metastasis via interleukin-6 activation of JAK-STAT and RhoA-ROCK signalling
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Hamish Campbell, Nicholas Fleming, Imogen Roth, Sunali Mehta, Anna Wiles, Gail Williams, Claire Vennin, Nikola Arsic, Ashleigh Parkin, Marina Pajic, Fran Munro, Les McNoe, Michael Black, John McCall, Tania L. Slatter, Paul Timpson, Roger Reddel, Pierre Roux, Cristin Print, Margaret A. Baird, and Antony W. Braithwaite
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Science - Abstract
Aberrant expression of the Δ133p53 isoform is linked to many cancers. Here, the authors utilise a model of the Δ133p53 isoform that is prone to tumours and inflammation, showing that Δ133p53 promotes tumour cell invasion by activation of the JAK-STAT and RhoA-ROCK pathways in an IL-6 dependent manner.
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- 2018
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5. A comparative study of anomaly detection methods for gross error detection problems
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Daniel Dobos, Tien Thanh Nguyen, Truong Dang, Allan Wilson, Helen Corbett, John McCall, and Phil Stockton
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General Chemical Engineering ,Computer Science Applications - Published
- 2023
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6. Expansion of Liver Transplantation Criteria for Hepatocellular Carcinoma from Milan to UCSF in Australia and New Zealand and Justification for Metroticket 2.0
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Savio G. Barreto, Simone I. Strasser, Geoffrey W. McCaughan, Michael A. Fink, Robert Jones, John McCall, Stephen Munn, Graeme A. Macdonald, Peter Hodgkinson, Gary P. Jeffrey, Bryon Jaques, Michael Crawford, Mark E. Brooke-Smith, and John W. Chen
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Cancer Research ,Oncology ,hepatitis ,outcomes ,survival ,Metroticket 2.0 ,Milan ,UCSF ,education - Abstract
Background: Expansion in liver transplantation (LT) criteria for HCC from Milan to UCSF has not adversely impacted overall survival, prompting further expansion towards Metroticket 2.0 (MT2). In this study, we compared patient survival post-transplant before and after 2007 and long-term outcomes for LT within Milan versus UCSF criteria (to determine the true benefit of the expansion of criteria) and retrospectively validated the MT2 criteria. Methods: Retrospective analysis of ANZLITR (including all patients transplanted for HCC since July 1997). The entire cohort was divided based on criteria used at the time of listing, namely, Milan era (1997–2006) and the UCSF era (2007–July 2015). Results: The overall 5- and 10-year cumulative survival rates for the entire cohort of 691 patients were 78% and 69%, respectively. Patients transplanted in UCSF era had significantly higher 5- and 10-year survival rates than in the Milan era (80% vs. 73% and 72% vs. 65%, respectively; p = 0.016). In the UCSF era, the 5-year survival rate for patients transplanted within Milan criteria was significantly better than those transplanted outside Milan but within UCSF criteria (83% vs. 73%; p < 0.024). Patients transplanted within the MT2 criteria had a significantly better 5- and 10-year survival rate as compared to those outside the criteria (81% vs. 64% and 73% vs. 50%, respectively; p = 0.001). Conclusion: Overall survival following LT for HCC has significantly improved over time despite expanding criteria from Milan to UCSF. Patients fulfilling the MT2 criteria have a survival comparable to the UCSF cohort. Thus, expansion of criteria to MT2 is justifiable.
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- 2022
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7. Multi-label classification via incremental clustering on an evolving data stream
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Tiancai Liang, Manh Truong Dang, John McCall, Alan Wee-Chung Liew, Anh Vu Luong, and Tien Thanh Nguyen
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Data stream ,Multi-label classification ,Concept drift ,Data stream mining ,Computer science ,Sample (statistics) ,02 engineering and technology ,computer.software_genre ,01 natural sciences ,Artificial Intelligence ,0103 physical sciences ,Signal Processing ,0202 electrical engineering, electronic engineering, information engineering ,Data analysis ,020201 artificial intelligence & image processing ,Computer Vision and Pattern Recognition ,Data mining ,010306 general physics ,Cluster analysis ,computer ,Software ,Hoeffding's inequality - Abstract
With the advancement of storage and processing technology, an enormous amount of data is collected on a daily basis in many applications. Nowadays, advanced data analytics have been used to mine the collected data for useful information and make predictions, contributing to the competitive advantages of companies. The increasing data volume, however, has posed many problems to classical batch learning systems, such as the need to retrain the model completely with the newly arrived samples or the impracticality of storing and accessing a large volume of data. This has prompted interest on incremental learning that operates on data streams. In this study, we develop an incremental online multi-label classification (OMLC) method based on a weighted clustering model. The model is made to adapt to the change of data via the decay mechanism in which each sample's weight dwindles away over time. The clustering model therefore always focuses more on newly arrived samples. In the classification process, only clusters whose weights are greater than a threshold (called mature clusters) are employed to assign labels for the samples. In our method, not only is the clustering model incrementally maintained with the revealed ground truth labels of the arrived samples, the number of predicted labels in a sample are also adjusted based on the Hoeffding inequality and the label cardinality. The experimental results show that our method is competitive compared to several well-known benchmark algorithms on six performance measures in both the stationary and the concept drift settings.
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- 2019
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8. Outcomes of Liver Transplantation in Small Infants
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Hidekazu Yamamoto, John McCall, Hector Vilca-Melendez, Anil Dhawan, Mohamed Rela, Shirin Elizabeth Khorsandi, Nigel Heaton, Yoichi Kawano, and Miriam Cortes-Cerisuelo
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Male ,medicine.medical_specialty ,medicine.medical_treatment ,Renal function ,030230 surgery ,Liver transplantation ,Pediatrics ,03 medical and health sciences ,Postoperative Complications ,0302 clinical medicine ,Humans ,Medicine ,Prospective Studies ,Prospective cohort study ,Survival rate ,Transplantation ,Hepatology ,business.industry ,Incidence ,Incidence (epidemiology) ,Graft Survival ,Age Factors ,Liver failure ,Infant ,Original Articles ,Liver Failure, Acute ,medicine.disease ,Liver Transplantation ,Surgery ,Portal vein thrombosis ,Survival Rate ,Treatment Outcome ,Original Article ,Female ,030211 gastroenterology & hepatology ,Graft survival ,business - Abstract
Liver transplantation (LT) for small infants remains challenging because of the demands related to graft selection, surgical technique, and perioperative management. The aim of this study was to evaluate the short‐term and longterm outcomes of LT regarding vascular/biliary complications, renal function, growth, and patient/graft survival in infants ≤3 months compared with those of an age between >3 and 6 months at a single transplant center. A total of 64 infants ≤6 months underwent LT and were divided into 2 groups according to age at LT: those of age ≤3 months (range, 6‐118 days; XS group, n = 37) and those of age >3 to ≤6 months (range, 124‐179 days; S group, n = 27) between 1989 and 2014. Acute liver failure was the main indication for LT in the XS group (n = 31, 84%) versus S (n = 7, 26%). The overall incidence of hepatic artery thrombosis and portal vein thrombosis/stricture were 5.4% and 10.8% in the XS group and 7.4% and 11.1% in the S group, respectively (not significant). The overall incidence of biliary stricture and leakage were 5.4% and 2.7% in the XS group and 3.7% and 3.7% in the S group, respectively (not significant). There was no significant difference between the 2 groups in terms of renal function. No significant difference was found between the 2 groups for each year after LT in terms of height and weight z score. The 1‐, 5‐, and 10‐year patient survival rates were 70.3%, 70.3%, and 70.3% in the XS group compared with 92.6%, 88.9%, and 88.9% in the S group, respectively (not significant). In conclusion, LT for smaller infants has acceptable outcomes despite the challenges of surgical technique, including vascular reconstruction and graft preparation, and perioperative management.
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- 2019
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9. Integration of Stress–Strain Maps in Mineral Systems Targeting for IOCG Mineralisation within the Mt. Woods Inlier, Gawler Craton, South Australia
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Jonathan Nicholas Gloyn-Jones, Ian James Basson, Ben Stoch, Corné Koegelenberg, and Michael-John McCall
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structural control ,fluid flow ,IOCG mineralisation ,finite element analysis ,numerical modelling ,exploration ,target generation ,Mt. Woods Inlier ,Gawler Craton ,Geology ,Geotechnical Engineering and Engineering Geology - Abstract
The application of finite element analysis is used to simulate the relative distribution and magnitude of stress–strain conditions during a geologically brief, NNW-SSE-oriented, extensional event (1595 Ma to 1590 Ma), co-incident with IOCG-hydrothermal fluid flow and mineralisation across the Mt Woods Inlier, Gawler Craton, South Australia. Differential stress and shear strain maps across the modelled terrane highlight regions that were predisposed to strain localization, extensional failure and fluid throughput during the simulated mineralisation event. These maps are integrated with other datasets and interpretation layers, one of which is a proposed structural–geometrical relationship apparent in many world-class IOCG deposits, including Prominent Hill, Olympic Dam, Sossego, Salobo, Cristalino and Candelaria. These deposits occur at steeply plunging, pipe-like intersections of conjugate extensional systems of faults, shears and/or contacts, wherein the obtuse angle may have been bisected by the maximum principal extensional axis (viz., σ3) during mineralisation. Several other layers are also used for the generation of targets, such as distance from major shear zones, favourable host lithologies, and proximity to tectonostratigraphic contacts of markedly contrasting competency. The result is an integrated target index or heat map for IOCG prospectively across the Mt. Woods Inlier.
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- 2022
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10. Programming Heterogeneous Parallel Machines Using Refactoring and Monte–Carlo Tree Search
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Vladimir Janjic, Christopher Brown, Mehdi Goli, John McCall, European Commission, EPSRC, University of St Andrews. School of Computer Science, and University of St Andrews. Centre for Interdisciplinary Research in Computational Algebra
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QA75 ,Monte-Carlo tree search ,Computer science ,Heterogenous parallel computing ,QA75 Electronic computers. Computer science ,T-NDAS ,Monte Carlo tree search ,Monte Carlo method ,02 engineering and technology ,Parallel computing ,computer.software_genre ,Theoretical Computer Science ,020204 information systems ,0202 electrical engineering, electronic engineering, information engineering ,Code (cryptography) ,Algorithmic skeleton ,020207 software engineering ,Tree (data structure) ,Code refactoring ,Theory of computation ,Scalability ,BDC ,Optimisations ,computer ,Software ,Information Systems - Abstract
Funding: This work was supported by the EU Horizon 2020 project, TeamPlay, Grant Number 779882, and UK EPSRC Discovery, Grant Number EP/P020631/1. This paper presents a new technique for introducing and tuning parallelism for heterogeneous shared-memory systems (comprising a mixture of CPUs and GPUs), using a combination of algorithmic skeletons (such as farms and pipelines), Monte–Carlo tree search for deriving mappings of tasks to available hardware resources, and refactoring tool support for applying the patterns and mappings in an easy and effective way. Using our approach, we demonstrate easily obtainable, significant and scalable speedups on a number of case studies showing speedups of up to 41 over the sequential code on a 24-core machine with one GPU. We also demonstrate that the speedups obtained by mappings derived by the MCTS algorithm are within 5–15% of the best-obtained manual parallelisation. Publisher PDF
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- 2020
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11. Truck and trailer scheduling in a real world, dynamic and heterogeneous context
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John McCall, Steven Anderson, Olivier Regnier-Coudert, and Mayowa Ayodele
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Truck ,050210 logistics & transportation ,Engineering ,021103 operations research ,Operations research ,business.industry ,Reliability (computer networking) ,05 social sciences ,Trailer ,0211 other engineering and technologies ,Transportation ,Context (language use) ,02 engineering and technology ,Solver ,Automotive engineering ,Scheduling (computing) ,Dynamic simulation ,0502 economics and business ,Vehicle routing problem ,Business and International Management ,business ,Civil and Structural Engineering - Abstract
We present a new variant of the Vehicle Routing Problem based on a real industrial scenario. This VRP is dynamic and heavily constrained and uses time-windows, a heterogeneous vehicle fleet and multiple types of job. A constructive solver is developed and tested using dynamic simulation of real-world data from a leading Scottish haulier. Our experiments establish the efficiency and reliability of the method for this problem. Additionally, a methodology for evaluating policy changes through simulation is presented, showing that our technique supports operations and management. We establish that fleet size can be reduced or more jobs handled by the company.
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- 2016
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12. Fitness Modeling With Markov Networks
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John McCall, Alexander E.I. Brownlee, and Qingfu Zhang
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Mathematical optimization ,Fitness function ,Fitness approximation ,business.industry ,Fitness model ,Evolutionary robotics ,Evolutionary algorithm ,Interactive evolutionary computation ,Machine learning ,computer.software_genre ,Markov model ,Theoretical Computer Science ,Computational Theory and Mathematics ,Fitness proportionate selection ,Artificial intelligence ,business ,computer ,Software ,Mathematics - Abstract
Fitness modeling has received growing interest from the evolutionary computation community in recent years. With a fitness model, one can improve evolutionary algorithm efficiency by directly sampling new solutions, developing hybrid guided evolutionary operators or using the model as a surrogate for an expensive fitness function. This paper addresses several issues on fitness modeling of discrete functions, particularly how modeling quality and efficiency can be improved. We define the Markov network fitness model in terms of Walsh functions. We explore the relationship between the Markov network fitness model and fitness in a number of discrete problems, showing how the parameters of the fitness model can identify qualitative features of the fitness function. We define the fitness prediction correlation, a metric to measure fitness modeling capability of local and global fitness models. We use this metric to investigate the effects of population size and selection on the tradeoff between model quality and complexity for the Markov network fitness model.
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- 2013
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13. Development and Validation of a UK-Specific Prostate Cancer Staging Predictive Model: UK Prostate Cancer Tables
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Olivier Regnier-Coudert, Thomas B. Lam, Samuel McClinton, and John McCall
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education.field_of_study ,Receiver operating characteristic ,business.industry ,Urology ,Concordance ,Population ,medicine.disease ,Logistic regression ,Prostate cancer ,Partin Tables ,Statistics ,Lookup table ,medicine ,Surgery ,Prostate cancer staging ,business ,education - Abstract
Objectives: To construct new prostate cancer staging lookup tables based on a dataset collated by the British Association of Urological Surgeons (BAUS) and to validate them and compare their predictive power with Partin tables. Patients and methods: Complete data on 1701 patients was collated between 1999 and 2008 across 57 UK centres. Lookup tables were created for prediction of pathological stage (PS) using PSA level, biopsy Gleason score (GS) and clinical stage, replicating Partin's original approach. Tables were generated using logistic regression (LR) and bootstrap resampling methods and were internally validated and externally validated using concordance indices (CI) and area under the receiver operating characteristic curve (AUROC) respectively. Results: The CI and AUROC analyses indicate that Partin tables performed poorly on UK data in comparison with US data. The UK prostate cancer tables performed better than Partin tables but the predictive power of all models was relatively poor. Conclusion: The study shows that the predictive power of Partin tables is reduced when applied to the UK population. Models generated using LR methodology have fundamental limitations, and we suggest alternative modelling methods such as Bayesian networks.
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- 2012
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14. Machine learning for improved pathological staging of prostate cancer: A performance comparison on a range of classifiers
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Thomas B. Lam, Robert Lothian, Samuel McClinton, Olivier Regnier-Coudert, James N'Dow, and John McCall
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Male ,Computer science ,Pathological staging ,Population ,Medicine (miscellaneous) ,Machine learning ,computer.software_genre ,Models, Biological ,Bayes' theorem ,Naive Bayes classifier ,Predictive Value of Tests ,Artificial Intelligence ,Statistics ,Humans ,education ,Neoplasm Staging ,education.field_of_study ,business.industry ,Prostatic Neoplasms ,Bayesian network ,Bayes Theorem ,Prostate-Specific Antigen ,Nomograms ,Logistic Models ,ROC Curve ,Area Under Curve ,Partin Tables ,Neural Networks, Computer ,Artificial intelligence ,Prostate cancer staging ,business ,computer ,Algorithms ,Predictive modelling - Abstract
Objectives: Prediction of prostate cancer pathological stage is an essential step in a patient's pathway. It determines the treatment that will be applied further. In current practice, urologists use the pathological stage predictions provided in Partin tables to support their decisions. However, Partin tables are based on logistic regression (LR) and built from US data. Our objective is to investigate a range of both predictive methods and of predictive variables for pathological stage prediction and assess them with respect to their predictive quality based on UK data. Methods and material: The latest version of Partin tables was applied to a large scale British dataset in order to measure their performances by mean of concordance index (c-index). The data was collected by the British Association of Urological Surgeons (BAUS) and gathered records from over 1700 patients treated with prostatectomy in 57 centers across UK. The original methodology was replicated using the BAUS dataset and evaluated using concordance index. In addition, a selection of classifiers, including, among others, LR, artificial neural networks and Bayesian networks (BNs) was applied to the same data and compared with each other using the area under the ROC curve (AUC). Subsets of the data were created in order to observe how classifiers perform with the inclusion of extra variables. Finally a local dataset prepared by the Aberdeen Royal Infirmary was used to study the effect on predictive performance of using different variables. Results: Partin tables have low predictive quality (c-index=0.602) when applied on UK data for comparison on patients with organ confined and extra prostatic extension conditions, patients at the two most frequently observed pathological stages. The use of replicate lookup tables built from British data shows an improvement in the classification, but the overall predictive quality remains low (c-index=0.610). Comparing a range of classifiers shows that BNs generally outperform other methods. Using the four variables from Partin tables, naive Bayes is the best classifier for the prediction of each class label (AUC=0.662 for OC). When two additional variables are added, the results of LR (0.675), artificial neural networks (0.656) and BN methods (0.679) are overall improved. BNs show higher AUCs than the other methods when the number of variables raises Conclusion: The predictive quality of Partin tables can be described as low to moderate on UK data. This means that following the predictions generated by Partin tables, many patients would received an inappropriate treatment, generally associated with a deterioration of their quality of life. In addition to demographic differences between UK and the original US population, the methodology and in particular LR present limitations. BN represents a promising alternative to LR from which prostate cancer staging can benefit. Heuristic search for structure learning and the inclusion of more variables are elements that further improve BN models quality.
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- 2012
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15. Optimization by estimation of distribution with DEUM framework based on Markov random fields
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John McCall and Siddhartha Shakya
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Mathematical optimization ,Markov random field ,Markov chain ,Applied Mathematics ,Variable-order Markov model ,Markov chain Monte Carlo ,Markov model ,Computer Science Applications ,symbols.namesake ,Control and Systems Engineering ,Joint probability distribution ,Modeling and Simulation ,symbols ,Algorithm ,Hammersley–Clifford theorem ,Gibbs sampling ,Mathematics - Abstract
This paper presents a Markov random field (MRF) approach to estimating and sampling the probability distribution in populations of solutions. The approach is used to define a class of algorithms under the general heading distribution estimation using Markov random fields (DEUM). DEUM is a subclass of estimation of distribution algorithms (EDAs) where interaction between solution variables is represented as an undirected graph and the joint probability of a solution is factorized as a Gibbs distribution derived from the structure of the graph. The focus of this paper will be on describing the three main characteristics of DEUM framework, which distinguishes it from the traditional EDA. They are: 1) use of MRF models, 2) fitness modeling approach to estimating the parameter of the model and 3) Monte Carlo approach to sampling from the model.
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- 2007
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16. Genetic algorithms for modelling and optimisation
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John McCall
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Range (mathematics) ,Computational Mathematics ,Search algorithm ,business.industry ,Artificial immune system ,Applied Mathematics ,Genetic algorithm ,Construct (python library) ,Artificial intelligence ,Optimal control ,business ,Algorithm ,Mathematics - Abstract
Genetic algorithms (GAs) are a heuristic search and optimisation technique inspired by natural evolution. They have been successfully applied to a wide range of real-world problems of significant complexity. This paper is intended as an introduction to GAs aimed at immunologists and mathematicians interested in immunology. We describe how to construct a GA and the main strands of GA theory before speculatively identifying possible applications of GAs to the study of immunology. An illustrative example of using a GA for a medical optimal control problem is provided. The paper also includes a brief account of the related area of artificial immune systems.
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- 2005
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17. Injuries in Short Track Speed Skating
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Victor Lun, John McCall, Andrew Quinn, and Tom J. Overend
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Adult ,Male ,Canada ,medicine.medical_specialty ,Contusions ,Physical Therapy, Sports Therapy and Rehabilitation ,Groin ,Lacerations ,Fractures, Bone ,medicine ,Humans ,Orthopedics and Sports Medicine ,Speed skating ,Anatomic Location ,Retrospective Studies ,business.industry ,Incidence ,Shoulder Dislocation ,Track (disk drive) ,Training (meteorology) ,Time loss ,Wrist Injuries ,Insidious onset ,medicine.anatomical_structure ,Spinal Injuries ,Skating ,Athletic Injuries ,Sprains and Strains ,Physical therapy ,Female ,Ankle ,business ,Leg Injuries - Abstract
Background Little is known about the pattern of injury in short track speed skating. Purpose To investigate the incidence and characteristics of injuries in short track speed skating. Study Design Retrospective study. Methods Ninety-five of 150 elite-level skaters (63.3%) were surveyed to collect information on training and competition load as well as on injuries sustained during the 1999—2000 competitive season. Injuries were characterized in terms of anatomic location, type of injury, time loss from training and competition, and circumstance of injury (acute onset during competition, on-ice practice, off-ice training, or insidious onset). Results Sixty-one of the 95 skaters (64.2%) reported sustaining at least one injury. The knee, ankle, spine, leg, and groin were the most commonly reported sites of injury. Skaters were also asked to list previous on-ice injuries. The two most common injuries occurring on-ice before the 1999—2000 season were lacerations from the knee down (11.1%) and ankle fractures (10.2%). Conclusion The results of this study suggest that there is a high incidence of injury in competitive short track speed skating.
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- 2003
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18. Orthotopic liver transplantation for unresectable hepatoblastoma
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Jon Pritchard, Anil Dhawan, Paolo Muiesan, A Baker, Giorgina-Mieli Vergani, Nigel Heaton, Parthi Srinivasan, Mohamed Rela, and John McCall
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Hepatoblastoma ,medicine.medical_specialty ,Lung Neoplasms ,Time Factors ,Adolescent ,medicine.medical_treatment ,Population ,Liver transplantation ,Lymphocytes, Tumor-Infiltrating ,medicine ,Humans ,Child ,education ,Survival rate ,Neoplasm Staging ,Porta hepatis ,Transplantation ,education.field_of_study ,business.industry ,Graft Survival ,Liver Neoplasms ,medicine.disease ,Primary tumor ,Liver Transplantation ,Surgery ,Survival Rate ,Regimen ,Treatment Outcome ,medicine.anatomical_structure ,Child, Preschool ,business - Abstract
Background The outcome of treatment for advanced hepatoblastoma has recently improved after the introduction of preoperative or pre- and postoperative cisplatin-containing chemotherapy combined with complete surgical excision. The role of liver transplantation in a population of patients who have received this regimen has not been clearly defined. Methods Orthotopic liver transplantation (OLT) was performed in 13 children, aged 5 months to 11 years (median 27 months), who were assessed with unresectable hepatoblastoma, and whose pretreatment extent-of-disease was based on radiologic findings of group III (n=11) and group IV (n=2). One child with a multifocal tumor showed pulmonary metastases at presentation, but, according to radiologic studies, the deposits resolved with chemotherapy before liver transplantation. One other child showed exophytic extension of the primary tumor infiltrating the porta hepatis and body of the pancreas. All 13 patients received preoperative chemotherapy to reduce the size of the primary tumor(s) and to treat metastatic spread. Results Twelve children underwent elective OLT; all are alive and show normal graft function at a mean follow-up of 33 months (range 1-108). One child shows evidence of recurrent disease in the form of pulmonary metastases. One child underwent emergency OLT for acute liver failure after (incomplete) extended right hepatectomy and died from respiratory failure, with no evidence of recurrent tumor 3 weeks posttransplant. Conclusions Liver transplantation is an effective treatment for unresectable unifocal or multifocal hepatoblastoma confined to the liver. A multidisciplinary approach to the management of hepatoblastoma, with thoughtful collaboration between pediatric oncologists, hepatologists, and liver surgeons, is essential.
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- 2002
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19. Mechanical thrombectomy of squamous cell carcinoma tumor thrombus presenting as extensive deep venous thrombosis
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Jeffrey Qiu, Sonam Kapadia, Nina Bowens, Christian de Virgilio, Nikhil Kansal, John McCallum, and Mark Archie
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Thromboembolism ,Endovascular ,Tumor thrombus ,Thrombectomy ,VTE ,Squamous cell carcinoma ,Diseases of the circulatory (Cardiovascular) system ,RC666-701 ,Surgery ,RD1-811 - Abstract
Background: The treatment of ilio-femoral deep venous thrombosis (DVT) has evolved with the advent of endovascular mechanical thrombectomy devices, such as the ClotTriever device (Inari, Irvine, CA). Patients may undergo percutaneous mechanical thrombectomy for thrombus removal and immediate restoration of venous drainage. Until recently, most venous thromboembolic disease has been treated with anticoagulation with or without lytic therapy. As a result of these methods, specimens have rarely been available for laboratory analysis. The ClotTriever device allows for single-session therapy without thrombolytics and specimen evaluation. Having access to these specimens may aid in elucidating the mechanisms of venous thromboembolism associated with malignancies in the future.
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- 2023
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20. Two Controlled Trials of Antibiotic Treatment in Patients with Persistent Symptoms and a History of Lyme Disease
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John McCall, Mark S. Klempner, Linden T. Hu, Mark Kosinski, Diane Wall, Christopher H. Schmid, Janine Evans, Lois Levy, Gary M. Johnson, Delona Norton, Richard P. Trevino, and Arthur Weinstein
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Male ,medicine.medical_specialty ,Administration, Oral ,law.invention ,Lyme disease ,Borrelia burgdorferi Group ,Double-Blind Method ,Quality of life ,Randomized controlled trial ,law ,Internal medicine ,medicine ,Humans ,Treatment Failure ,Borrelia burgdorferi ,Doxycycline ,Lyme Disease ,Dysesthesia ,biology ,business.industry ,Ceftriaxone ,General Medicine ,Middle Aged ,medicine.disease ,biology.organism_classification ,Antibodies, Bacterial ,Anti-Bacterial Agents ,Surgery ,Post-Treatment Lyme Disease Syndrome ,Chronic Disease ,Injections, Intravenous ,Quality of Life ,Drug Therapy, Combination ,Female ,medicine.symptom ,business ,medicine.drug - Abstract
It is controversial whether prolonged antibiotic treatment is effective for patients in whom symptoms persist after the recommended antibiotic treatment for acute Lyme disease.We conducted two randomized trials: one in 78 patients who were seropositive for IgG antibodies to Borrelia burgdorferi at the time of enrollment and the other in 51 patients who were seronegative. The patients received either intravenous ceftriaxone, 2 g daily for 30 days, followed by oral doxycycline, 200 mg daily for 60 days, or matching intravenous and oral placebos. Each patient had well-documented, previously treated Lyme disease but had persistent musculoskeletal pain, neurocognitive symptoms, or dysesthesia, often associated with fatigue. The primary outcome measures were improvement on the physical- and mental-health-component summary scales of the Medical Outcomes Study 36-item Short-Form General Health Survey (SF-36)--a scale measuring the health-related quality of life--on day 180 of the study.After a planned interim analysis, the data and safety monitoring board recommended that the studies be discontinued because data from the first 107 patients indicated that it was highly unlikely that a significant difference in treatment efficacy between the groups would be observed with the planned full enrollment of 260 patients. Base-line assessments documented severe impairment in the patients' health-related quality of life. In intention-to-treat analyses, there were no significant differences in the outcomes with prolonged antibiotic treatment as compared with placebo. Among the seropositive patients who were treated with antibiotics, there was improvement in the score on the physical-component summary scale of the SF-36, the mental-component summary scale, or both in 37 percent, no change in 29 percent, and worsening in 34 percent; among seropositive patients receiving placebo, there was improvement in 40 percent, no change in 26 percent, and worsening in 34 percent (P=0.96 for the comparison between treatment groups). The results were similar for the seronegative patients.There is considerable impairment of health-related quality of life among patients with persistent symptoms despite previous antibiotic treatment for acute Lyme disease. However, in these two trials, treatment with intravenous and oral antibiotics for 90 days did not improve symptoms more than placebo.
- Published
- 2001
- Full Text
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21. An application of genetic algorithms to optimization of cancer chemotherapy
- Author
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John McCall, E. Forrest, and Andrei Petrovski
- Subjects
Mathematical optimization ,Drug treatment ,Mathematics (miscellaneous) ,Cancer chemotherapy ,Computer science ,Tumour size ,Applied Mathematics ,Genetic algorithm ,Gompertz function ,Treatment strategy ,Education - Abstract
In recent years much work has been don; on modelling the growth of malignant tumours with a view to predicting their development and optimizing the effect of chemotherapy on their alleviation. One approach has been to treat the tumour as a non‐linear system and the drug treatment as a control strategy. This has led to the use of calculus of variations and optimization techniques to produce optimal and sub‐optimal drug regimes. This paper uses the Gompertz equation as a model of tumour growth and attempts to minimize final tumour size in the presence of drug constraints. The optimization technique is novel in that it uses the genetic algorithm method to devise optimal drug regimes where individual regimes are encoded as ‘chromosomes’ and evolution is simulated in order to improve treatment strategies.
- Published
- 1998
- Full Text
- View/download PDF
22. Renal artery embolization prior to nephrectomy for locally advanced renal cell carcinoma
- Author
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Homayoun, Zargar, Ben, Addison, John, McCall, Adam, Bartlett, Brendan, Buckley, and Michael, Rice
- Subjects
Adult ,Aged, 80 and over ,Male ,Operative Time ,Middle Aged ,Embolization, Therapeutic ,Nephrectomy ,Kidney Neoplasms ,Neoadjuvant Therapy ,Renal Artery ,Treatment Outcome ,Humans ,Female ,Carcinoma, Renal Cell ,Aged ,Retrospective Studies - Abstract
To assess the outcomes of patients undergoing percutaneous renal artery embolization (PRAE) prior to radical nephrectomy.We performed retrospective chart review of patients undergoing PRAE in Auckland Public Hospital from January 2004 to December 2011. PRAE was performed under epidural anaesthesia and within 24 h of nephrectomy. We compared our perioperative outcomes with the published literature.Forty-two patients were identified in this series. Patients had predominantly more advanced stage disease with 30 (71%) being T3 or higher (TNM staging). Median operation time was 192 min (range 84-428). 45.2% of patients experienced complications from the surgery. There were no complications associated with PRAE.PRAE prior to nephrectomy is a safe procedure. There is no convincing evidence in the literature that the benefits outweigh the risks. All published studies are non-randomized and subject to selection bias, so the true role of PRAE has not yet been determined and routine use is probably not justified.
- Published
- 2014
23. Cancer trials in New Zealand--patients are not the problem
- Author
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Christopher, Jackson, John, McCall, Bridget, Robinson, Katrina, Sharples, and Michael, Findlay
- Subjects
Informed Consent ,Neoplasms ,Patient Selection ,Humans ,Randomized Controlled Trials as Topic - Published
- 2013
24. Motopark Beggars
- Author
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John McCall
- Subjects
Philosophy ,Literature and Literary Theory ,Anthropology - Published
- 1996
- Full Text
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25. Dormant Sprigging of Bermudagrass and Zoysiagrass
- Author
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Juming Zhang, Michael Richardson, Douglas Karcher, John McCalla, Jingwen Mai, and Hanfu Luo
- Subjects
cynodon dactylon ,propagation ,zoysia japonica ,sod ,Plant culture ,SB1-1110 - Abstract
Many bermudagrass (Cynodon sp.) and zoysiagrass (Zoysia sp.) cultivars are not available as seed and are commonly planted vegetatively using sprigs, especially for sod production or in sand-based systems. Sprig planting is typically done in late spring or early summer, but this can result in an extended grow-in period and delay the use of the turf in the first growing season. The objective of this study was to determine if sprigs of bermudagrass and zoysiagrass could be planted earlier in the year, during the dormancy phase, to hasten establishment. A field study was carried out in Fayetteville, AR, in 2014 and 2016 using ‘Tifway’ hybrid bermudagrass (Cynodon dactylon × Cynodon transvaalensis) and ‘Meyer’ zoysiagrass (Zoysia japonica), and in Guangzhou, China, in 2015, using ‘Tifway’ hybrid bermudagrass and ‘Lanyin III’ zoysiagrass (Z. japonica). Sprigs were planted in March (dormant), May (spring) and July (summer) in Fayetteville, and in January (dormant), March (spring) and May (summer) in Guangzhou. Sprigging rates of 30, 60, and 90 m3·ha−1 were tested at both locations and across all planting dates. Bermudagrass was less affected by planting date, with dormant, spring or summer plantings effectively establishing full cover in the first growing season. Zoysiagrass that was sprigged in the dormant season was successfully established by the end of the first growing season while a full zoysiagrass cover was not achieved with either spring or summer plantings in Arkansas. Dormant sprigging reached full coverage as fast or faster than traditional spring or summer planting dates at both locations, indicating that bermudagrass and zoysiagrass establishment can be achieved earlier in the growing season using dormant sprigging methods.
- Published
- 2021
- Full Text
- View/download PDF
26. Detection of Carcinoembryonic Antigen Messenger RNA in Lymph Nodes from Patients with Colorectal Cancer
- Author
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John McCall, Dave Hoon, and Arend Merrie
- Subjects
Oncology ,medicine.medical_specialty ,Messenger RNA ,biology ,business.industry ,Colorectal cancer ,General Medicine ,medicine.disease ,Text mining ,Carcinoembryonic antigen ,Internal medicine ,medicine ,biology.protein ,Lymph ,business - Published
- 1998
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27. First Chromosome-Scale Assembly and Deep Floral-Bud Transcriptome of a Male Kiwifruit
- Author
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Jibran Tahir, Ross Crowhurst, Simon Deroles, Elena Hilario, Cecilia Deng, Robert Schaffer, Liam Le Lievre, Cyril Brendolise, David Chagné, Susan E. Gardiner, Mareike Knaebel, Andrew Catanach, John McCallum, Paul Datson, Susan Thomson, Lynette R. Brownfield, Simona Nardozza, and Sarah M. Pilkington
- Subjects
male kiwifruit genome ,sex determining region ,long read genome assembly ,transcriptomic of male flower ,PacBio and illumina sequencing ,male—genetics ,Genetics ,QH426-470 - Published
- 2022
- Full Text
- View/download PDF
28. Gall bladder cancer, extrahepatic bile duct cancer and ampullary carcinoma in New Zealand: Demographics, pathology and survival
- Author
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Jonathan, Koea, Anthony, Phillips, Carlene, Lawes, Michael, Rodgers, John, Windsor, and John, McCall
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Adult ,Aged, 80 and over ,Ampulla of Vater ,Incidence ,Common Bile Duct Neoplasms ,Adenocarcinoma ,Middle Aged ,White People ,Cholangiocarcinoma ,Bile Duct Neoplasms ,Bile Ducts, Extrahepatic ,Humans ,Gallbladder Neoplasms ,Registries ,Aged ,New Zealand - Abstract
The aim of present paper was to document the incidence of gall bladder cancer, cancer of the extrahepatic bile ducts and ampullary carcinoma in New Zealand.Data were collected from the New Zealand Cancer Registry from 1980 to 1997 and combined with national census statistics to give crude and age standardized incidence rates.Over the 18-year study period, 226 carcinomas of the ampulla of Vater, 608 gall bladder cancers, and 486 extrahepatic cholangiocarcinomas were registered. The age standardized incidence rates for gall bladder carcinoma in all New Zealanders were 0.41/100 000 in men and 0.74/100 000 in women. The age standardized incidence rates for gall bladder cancer in Maori were 1.49/100 000 in Maori men and 1.59/100 000 in Maori women. The corresponding age standardized incidence rates for extrahepatic bile duct cancers were 0.67/100 000 in men and 0.45/100 000 in women. There were insufficient cases to calculate an age standardized incidence in Maori or Pacific Islanders. For carcinoma of the ampulla, the age standardized rates were 0.34/100 000 in men and 0.25/100 000 in women. There were insufficient cases to calculate an age standardized incidence rate for Maori or Pacific Islanders. When histology was defined adenocarcinoma was the most common form of cancer occurring in 66% of gall bladder cancers, 91% of extrahepatic bile duct cancers and 70% of ampullary cancers. Most tumours were advanced at presentation with regional or distant metastases present in 72% of gall bladder cancers, 63% of extrahepatic bile duct cancers and 69% of ampullary tumours at diagnosis. Survival was poor with median survivals of 86 days, 151 days and 440 days recorded for gall bladder cancer, extrahepatic bile duct cancer and ampullary cancer, respectively.The demographic profile, pathology and survival of patients with gall bladder cancer, extrahepatic bile duct cancer and ampullary carcinoma are similar in New Zealand to that of other Western countries. However New Zealand Maori have a relatively high incidence of gall bladder cancer, and the incidence is equal in both Maori men and women, while cancers of the extra-hepatic bile duct and ampulla of Vater are rare in Maori. In comparison, cancers of the gall bladder, extrahepatic bile ducts and ampulla are rare in Pacific Islanders.
- Published
- 2002
29. Multiple quantitative trait loci contribute to resistance to bacterial canker incited by Pseudomonas syringae pv. actinidiae in kiwifruit (Actinidia chinensis)
- Author
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Jibran Tahir, Stephen Hoyte, Heather Bassett, Cyril Brendolise, Abhishek Chatterjee, Kerry Templeton, Cecilia Deng, Ross Crowhurst, Mirco Montefiori, Ed Morgan, Andrew Wotton, Keith Funnell, Claudia Wiedow, Mareike Knaebel, Duncan Hedderley, Joel Vanneste, John McCallum, Kirsten Hoeata, Amardeep Nath, David Chagné, Luis Gea, and Susan E. Gardiner
- Subjects
Botany ,QK1-989 ,Plant culture ,SB1-1110 - Abstract
Abstract Pseudomonas syringae pv. actinidiae (Psa) biovar 3, a virulent, canker-inducing pathogen is an economic threat to the kiwifruit (Actinidia spp.) industry worldwide. The commercially grown diploid (2×) A. chinensis var. chinensis is more susceptible to Psa than tetraploid and hexaploid kiwifruit. However information on the genetic loci modulating Psa resistance in kiwifruit is not available. Here we report mapping of quantitative trait loci (QTLs) regulating resistance to Psa in a diploid kiwifruit population, derived from a cross between an elite Psa-susceptible ‘Hort16A’ and a resistant male breeding parent P1. Using high-density genetic maps and intensive phenotyping, we identified a single QTL for Psa resistance on Linkage Group (LG) 27 of ‘Hort16A’ revealing 16–19% phenotypic variance and candidate alleles for susceptibility and resistance at this loci. In addition, six minor QTLs were identified in P1 on distinct LGs, exerting 4–9% variance. Resistance in the F1 population is improved by additive effects from ‘Hort16A’ and P1 QTLs providing evidence that divergent genetic pathways interact to combat the virulent Psa strain. Two different bioassays further identified new QTLs for tissue-specific responses to Psa. The genetic marker at LG27 QTL was further verified for association with Psa resistance in diploid Actinidia chinensis populations. Transcriptome analysis of Psa-resistant and susceptible genotypes in field revealed hallmarks of basal defense and provided candidate RNA-biomarkers for screening for Psa resistance in greenhouse conditions.
- Published
- 2019
- Full Text
- View/download PDF
30. A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
- Author
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Sarah M. Pilkington, Ross Crowhurst, Elena Hilario, Simona Nardozza, Lena Fraser, Yongyan Peng, Kularajathevan Gunaseelan, Robert Simpson, Jibran Tahir, Simon C. Deroles, Kerry Templeton, Zhiwei Luo, Marcus Davy, Canhong Cheng, Mark McNeilage, Davide Scaglione, Yifei Liu, Qiong Zhang, Paul Datson, Nihal De Silva, Susan E. Gardiner, Heather Bassett, David Chagné, John McCallum, Helge Dzierzon, Cecilia Deng, Yen-Yi Wang, Lorna Barron, Kelvina Manako, Judith Bowen, Toshi M. Foster, Zoe A. Erridge, Heather Tiffin, Chethi N. Waite, Kevin M. Davies, Ella P. Grierson, William A. Laing, Rebecca Kirk, Xiuyin Chen, Marion Wood, Mirco Montefiori, David A. Brummell, Kathy E. Schwinn, Andrew Catanach, Christina Fullerton, Dawei Li, Sathiyamoorthy Meiyalaghan, Niels Nieuwenhuizen, Nicola Read, Roneel Prakash, Don Hunter, Huaibi Zhang, Marian McKenzie, Mareike Knäbel, Alastair Harris, Andrew C. Allan, Andrew Gleave, Angela Chen, Bart J. Janssen, Blue Plunkett, Charles Ampomah-Dwamena, Charlotte Voogd, Davin Leif, Declan Lafferty, Edwige J. F. Souleyre, Erika Varkonyi-Gasic, Francesco Gambi, Jenny Hanley, Jia-Long Yao, Joey Cheung, Karine M. David, Ben Warren, Ken Marsh, Kimberley C. Snowden, Kui Lin-Wang, Lara Brian, Marcela Martinez-Sanchez, Mindy Wang, Nadeesha Ileperuma, Nikolai Macnee, Robert Campin, Peter McAtee, Revel S. M. Drummond, Richard V. Espley, Hilary S. Ireland, Rongmei Wu, Ross G. Atkinson, Sakuntala Karunairetnam, Sean Bulley, Shayhan Chunkath, Zac Hanley, Roy Storey, Amali H. Thrimawithana, Susan Thomson, Charles David, Raffaele Testolin, Hongwen Huang, Roger P. Hellens, and Robert J. Schaffer
- Subjects
Manual annotation ,Genome sequencing ,Actinidia chinensis ,Biotechnology ,TP248.13-248.65 ,Genetics ,QH426-470 - Abstract
Abstract Background Most published genome sequences are drafts, and most are dominated by computational gene prediction. Draft genomes typically incorporate considerable sequence data that are not assigned to chromosomes, and predicted genes without quality confidence measures. The current Actinidia chinensis (kiwifruit) ‘Hongyang’ draft genome has 164 Mb of sequences unassigned to pseudo-chromosomes, and omissions have been identified in the gene models. Results A second genome of an A. chinensis (genotype Red5) was fully sequenced. This new sequence resulted in a 554.0 Mb assembly with all but 6 Mb assigned to pseudo-chromosomes. Pseudo-chromosomal comparisons showed a considerable number of translocation events have occurred following a whole genome duplication (WGD) event some consistent with centromeric Robertsonian-like translocations. RNA sequencing data from 12 tissues and ab initio analysis informed a genome-wide manual annotation, using the WebApollo tool. In total, 33,044 gene loci represented by 33,123 isoforms were identified, named and tagged for quality of evidential support. Of these 3114 (9.4%) were identical to a protein within ‘Hongyang’ The Kiwifruit Information Resource (KIR v2). Some proportion of the differences will be varietal polymorphisms. However, as most computationally predicted Red5 models required manual re-annotation this proportion is expected to be small. The quality of the new gene models was tested by fully sequencing 550 cloned ‘Hort16A’ cDNAs and comparing with the predicted protein models for Red5 and both the original ‘Hongyang’ assembly and the revised annotation from KIR v2. Only 48.9% and 63.5% of the cDNAs had a match with 90% identity or better to the original and revised ‘Hongyang’ annotation, respectively, compared with 90.9% to the Red5 models. Conclusions Our study highlights the need to take a cautious approach to draft genomes and computationally predicted genes. Our use of the manual annotation tool WebApollo facilitated manual checking and correction of gene models enabling improvement of computational prediction. This utility was especially relevant for certain types of gene families such as the EXPANSIN like genes. Finally, this high quality gene set will supply the kiwifruit and general plant community with a new tool for genomics and other comparative analysis.
- Published
- 2018
- Full Text
- View/download PDF
31. QTL Mapping for Resistance to Cankers Induced by Pseudomonas syringae pv. actinidiae (Psa) in a Tetraploid Actinidia chinensis Kiwifruit Population
- Author
-
Jibran Tahir, Cyril Brendolise, Stephen Hoyte, Marielle Lucas, Susan Thomson, Kirsten Hoeata, Catherine McKenzie, Andrew Wotton, Keith Funnell, Ed Morgan, Duncan Hedderley, David Chagné, Peter M. Bourke, John McCallum, Susan E. Gardiner, and Luis Gea
- Subjects
perennials ,polyploid genetics ,kiwifruit ,polygenic resistance ,bacterial pathogen ,QTLs ,Medicine - Abstract
Polyploidy is a key driver of significant evolutionary changes in plant species. The genus Actinidia (kiwifruit) exhibits multiple ploidy levels, which contribute to novel fruit traits, high yields and resistance to the canker-causing dieback disease incited by Pseudomonas syringae pv. actinidiae (Psa) biovar 3. However, the genetic mechanism for resistance to Psa observed in polyploid kiwifruit is not yet known. In this study we performed detailed genetic analysis of a tetraploid Actinidia chinensis var. chinensis population derived from a cross between a female parent that exhibits weak tolerance to Psa and a highly Psa-resistant male parent. We used the capture-sequencing approach across the whole kiwifruit genome and generated the first ultra-dense maps in a tetraploid kiwifruit population. We located quantitative trait loci (QTLs) for Psa resistance on these maps. Our approach to QTL mapping is based on the use of identity-by-descent trait mapping, which allowed us to relate the contribution of specific alleles from their respective homologues in the male and female parent, to the control of Psa resistance in the progeny. We identified genes in the diploid reference genome whose function is suggested to be involved in plant defense, which underly the QTLs, including receptor-like kinases. Our study is the first to cast light on the genetics of a polyploid kiwifruit and suggest a plausible mechanism for Psa resistance in this species.
- Published
- 2020
- Full Text
- View/download PDF
32. Electronic excitation in potentially reactive atom–molecule collisions
- Author
-
Charlotte Sholeen, M.A.D. Fluendy, David Sutton, Kenneth P. Lawley, and John McCall
- Subjects
chemistry.chemical_classification ,Scattering ,Chemistry ,Atom ,Polyatomic ion ,Molecule ,Halide ,Electron ,Physics::Chemical Physics ,Atomic physics ,Alkyl ,Excitation - Abstract
Inelastic differential scattering cross sections for the system potassium + alkyl halide have been measured in the small angle region for Eχ between 20–1000 eV°. Electronic excitation of both collision partners is seen together with vibrational excitation of the alkyl halide.Evidence is adduced suggesting that excitation occurs by either of two paths corresponding to the preliminary transfer of an electron in the entrance channel or as the colliding pair recedes. A harpooning model incorporating bond stretching in the negative molecular ion is developed that agrees well with most of the observations.
- Published
- 1979
- Full Text
- View/download PDF
33. Remarks on the Effects of Sleep, in Exhausted States of the System
- Author
-
John McCall
- Subjects
medicine.medical_specialty ,Fuel Technology ,business.industry ,medicine ,Energy Engineering and Power Technology ,General Medicine ,Psychiatry ,business ,Sleep in non-human animals - Abstract
n/a
- Published
- 1853
- Full Text
- View/download PDF
34. Molecular Characterisation of a Supergene Conditioning Super-High Vitamin C in Kiwifruit Hybrids
- Author
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John McCallum, William Laing, Sean Bulley, Susan Thomson, Andrew Catanach, Martin Shaw, Mareike Knaebel, Jibran Tahir, Simon Deroles, Gail Timmerman-Vaughan, Ross Crowhurst, Elena Hilario, Matthew Chisnall, Robyn Lee, Richard Macknight, and Alan Seal
- Subjects
kiwifruit ,genomics ,polyploidy ,breeding ,ascorbic acid ,vitamin C ,Botany ,QK1-989 - Abstract
During analysis of kiwifruit derived from hybrids between the high vitamin C (ascorbic acid; AsA) species Actinidia eriantha and A. chinensis, we observed bimodal segregation of fruit AsA concentration suggesting major gene segregation. To test this hypothesis, we performed whole-genome sequencing on pools of hybrid genotypes with either high or low AsA fruit. Pool-GWAS (genome-wide association study) revealed a single Quantitative Trait Locus (QTL) spanning more than 5 Mbp on chromosome 26, which we denote as qAsA26.1. A co-dominant PCR marker was used to validate this association in four diploid (A. chinensis × A. eriantha) × A. chinensis backcross families, showing that the A. eriantha allele at this locus increases fruit AsA levels by 250 mg/100 g fresh weight. Inspection of genome composition and recombination in other A. chinensis genetic maps confirmed that the qAsA26.1 region bears hallmarks of suppressed recombination. The molecular fingerprint of this locus was examined in leaves of backcross validation families by RNA sequencing (RNASEQ). This confirmed strong allelic expression bias across this region as well as differential expression of transcripts on other chromosomes. This evidence suggests that the region harbouring qAsA26.1 constitutes a supergene, which may condition multiple pleiotropic effects on metabolism.
- Published
- 2019
- Full Text
- View/download PDF
35. The onion (Allium cepa L.) R2R3-MYB gene MYB1 regulates anthocyanin biosynthesis
- Author
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Kathy Schwinn, Hanh Ngo, Fernand Kenel, David Brummell, Nick Albert, John McCallum, Meeghan Pither-Joyce, Ross Crowhurst, Colin Eady, and Kevin Davies
- Subjects
Garlic ,regulation ,transgenic ,Anthocyanin ,onion ,Asparagales ,Plant culture ,SB1-1110 - Abstract
Bulb colour is an important consumer trait for onion (Allium cepa L., Allioideae, Asparagales). The bulbs accumulate a range of flavonoid compounds, including anthocyanins (red), flavonols (pale yellow) and chalcones (bright yellow). Flavonoid regulation is poorly characterised in onion and in other plants belonging to the Asparagales, despite being a major plant order containing many important crop and ornamental species. R2R3-MYB transcription factors associated with the regulation of distinct branches of the flavonoid pathway were isolated from onion. These belonged to sub-groups (SGs) that commonly activate anthocyanin (SG6, MYB1) or flavonol (SG7, MYB29) production, or repress phenylpropanoid/flavonoid synthesis (SG4, MYB4, MYB5). MYB1 was demonstrated to be a positive regulator of anthocyanin biosynthesis by the induction of anthocyanin production in onion tissue when transiently overexpressd and by reduction of pigmentation when transiently repressed via RNAi. Furthermore, ectopic red pigmentation was observed in garlic (A. sativum L.) plants stably transformed with a construct for co-overexpression of MYB1 and a bHLH partner. MYB1 also was able to complement the acyanic petal phenotype of a defined R2R3-MYB anthocyanin mutant in Antirrhinum majus of the asterid clade of eudicots. The availability of sequence information for flavonoid-related MYBs from onion enabled phylogenetic groupings to be determined across monocotyledonous and dicotyledonous species, including the identification of characteristic amino acid motifs. This analysis suggests that divergent evolution of the R2R3-MYB family has occurred between Poaceae/Orchidaceae and Allioideae species. The DNA sequences identified will be valuable for future analysis of classical flavonoid genetic loci in Allium crops and will assist the breeding of these important crop species.
- Published
- 2016
- Full Text
- View/download PDF
36. Doubled Haploid 'CUDH2107' as a Reference for Bulb Onion (Allium cepa L.) Research: Development of a Transcriptome Catalogue and Identification of Transcripts Associated with Male Fertility.
- Author
-
Jiffinvir S Khosa, Robyn Lee, Sophia Bräuning, Janice Lord, Meeghan Pither-Joyce, John McCallum, and Richard C Macknight
- Subjects
Medicine ,Science - Abstract
Researchers working on model plants have derived great benefit from developing genomic and genetic resources using 'reference' genotypes. Onion has a large and highly heterozygous genome making the sharing of germplasm and analysis of sequencing data complicated. To simplify the discovery and analysis of genes underlying important onion traits, we are promoting the use of the homozygous double haploid line 'CUDH2107' by the onion research community. In the present investigation, we performed transcriptome sequencing on vegetative and reproductive tissues of CUDH2107 to develop a multi-organ reference transcriptome catalogue. A total of 396 million 100 base pair paired reads was assembled using the Trinity pipeline, resulting in 271,665 transcript contigs. This dataset was analysed for gene ontology and transcripts were classified on the basis of putative biological processes, molecular function and cellular localization. Significant differences were observed in transcript expression profiles between different tissues. To demonstrate the utility of our CUDH2107 transcriptome catalogue for understanding the genetic and molecular basis of various traits, we identified orthologues of rice genes involved in male fertility and flower development. These genes provide an excellent starting point for studying the molecular regulation, and the engineering of reproductive traits.
- Published
- 2016
- Full Text
- View/download PDF
37. Optical Sensing of Weed Infestations at Harvest
- Author
-
Judit Barroso, John McCallum, and Dan Long
- Subjects
weed mapping ,on-line optical sensing ,site-specific weed management ,Chemical technology ,TP1-1185 - Abstract
Kochia (Kochia scoparia L.), Russian thistle (Salsola tragus L.), and prickly lettuce (Lactuca serriola L.) are economically important weeds infesting dryland wheat (Triticum aestivum L.) production systems in the western United States. Those weeds produce most of their seeds post-harvest. The objectives of this study were to determine the ability of an optical sensor, installed for on-the-go measurement of grain protein concentration, to detect the presence of green plant matter in flowing grain and assess the potential usefulness of this information for mapping weeds at harvest. Spectra of the grain stream were recorded continuously at a rate of 0.33 Hz during harvest of two spring wheat fields of 1.9 and 5.4 ha. All readings were georeferenced using a Global Positioning System (GPS) receiver with 1 m positional accuracy. Chlorophyll of green plant matter was detectable in the red (638–710 nm) waveband. Maps of the chlorophyll signal from both fields showed an overall agreement of 78.1% with reference maps, one constructed prior to harvest and the other at harvest time, both based on visual evaluations of the three green weed species conducted by experts. Information on weed distributions at harvest may be useful for controlling post-harvest using variable rate technology for herbicide applications.
- Published
- 2017
- Full Text
- View/download PDF
38. Teacher Mobility and Allocation
- Author
-
David H. Greenberg and John McCall
- Subjects
Organizational Behavior and Human Resource Management ,Economics and Econometrics ,Management of Technology and Innovation ,Strategy and Management ,Mathematics education ,Job satisfaction ,Academic achievement ,Sociology ,Large city ,Socioeconomic status ,School system - Abstract
The paper presents results from an examination of teacher flows within a large city school system. The focus is primarily on the mobility of teachers among schools within the system, the movement of teachers into and out of the system, and the effect of these flows on the allocation of teachers among different types of schools. The data cover the movement of teachers in San Diego between the 1970-71 and 1971-72 school years. However, the theoretical framework used and many of the empirical results should be directly relevant to school personnel systems in large cities throughout the United States.
- Published
- 1974
- Full Text
- View/download PDF
39. A Supply Function of First-Term Re-Enlistees to the Air Force
- Author
-
John McCall and Neil Wallace
- Subjects
Organizational Behavior and Human Resource Management ,Economics and Econometrics ,Supply ,Labour economics ,Earnings ,business.industry ,Strategy and Management ,Military service ,media_common.quotation_subject ,Control (management) ,Sample (statistics) ,Military personnel ,Management of Technology and Innovation ,Remuneration ,Medicine ,Demographic economics ,business ,Duty ,media_common - Abstract
This paper examines several aspects of the training and retention of Air Force electronic specialists. The major goal of the study is to investigate the responsiveness of the re-enlistment rate to changes in Air Force remuneration. The study is based on data obtained from the Personnel Research Laboratory at Lackland Air Force Base. Both biographical and earnings information were available for a group of 505 electronic specialists who left the Air Force in 1962 after their first tour of duty and who reported their civilian earnings in 1964. Biographical data were also obtained for a control group of 393 electronic specialists who chose to re-enlist in 1962 after their first tour of duty. For this sample of airmen, the re-enlistment rate is very sensitive to differences between civilian and Air Force earnings opportunities. Our results imply, for example, that if the initial re-enlistment rate were 50 percent and if Air Force remuneration were increased by $1,000 per year, then the re-enlistment rate would rise to about 70 percent.
- Published
- 1969
- Full Text
- View/download PDF
40. Efficacy and tolerability of cefprozil versus amoxicillin/clavulanate for the treatment of adults with severe sinusitis
- Author
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Adelglass, Jeffrey, Bundy, John McCall, and Woods, Robert
- Published
- 1998
- Full Text
- View/download PDF
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