13 results on '"Dunham, Chris"'
Search Results
2. The impact of whole genome and transcriptome analysis (WGTA) on predictive biomarker discovery and diagnostic accuracy of advanced malignancies
- Author
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Tessier‐Cloutier, Basile, Grewal, Jasleen K, Jones, Martin R, Pleasance, Erin, Shen, Yaoqing, Cai, Ellen, Dunham, Chris, Hoang, Lynn, Horst, Basil, Huntsman, David G, Ionescu, Diana, Karnezis, Anthony N, Lee, Anna F, Lee, Cheng Han, Lee, Tae Hoon, Twa, David DW, Mungall, Andrew J, Mungall, Karen, Naso, Julia R, Ng, Tony, Schaeffer, David F, Sheffield, Brandon S, Skinnider, Brian, Smith, Tyler, Williamson, Laura, Zhong, Ellia, Regier, Dean A, Laskin, Janessa, Marra, Marco A, Gilks, C Blake, Jones, Steven JM, and Yip, Stephen
- Subjects
Biomedical and Clinical Sciences ,Oncology and Carcinogenesis ,Genetics ,Cancer ,Rare Diseases ,Human Genome ,4.2 Evaluation of markers and technologies ,Detection ,screening and diagnosis ,Algorithms ,Biomarkers ,Tumor ,Gene Expression Profiling ,Humans ,Neoplasms ,biomarker ,diagnostic ,WGTA ,pathology ,precision medicine ,oncology ,cancer of unknown primary ,machine learning ,Clinical sciences - Abstract
In this study, we evaluate the impact of whole genome and transcriptome analysis (WGTA) on predictive molecular profiling and histologic diagnosis in a cohort of advanced malignancies. WGTA was used to generate reports including molecular alterations and site/tissue of origin prediction. Two reviewers analyzed genomic reports, clinical history, and tumor pathology. We used National Comprehensive Cancer Network (NCCN) consensus guidelines, Food and Drug Administration (FDA) approvals, and provincially reimbursed treatments to define genomic biomarkers associated with approved targeted therapeutic options (TTOs). Tumor tissue/site of origin was reassessed for most cases using genomic analysis, including a machine learning algorithm (Supervised Cancer Origin Prediction Using Expression [SCOPE]) trained on The Cancer Genome Atlas data. WGTA was performed on 652 cases, including a range of primary tumor types/tumor sites and 15 malignant tumors of uncertain histogenesis (MTUH). At the time WGTA was performed, alterations associated with an approved TTO were identified in 39 (6%) cases; 3 of these were not identified through routine pathology workup. In seven (1%) cases, the pathology workup either failed, was not performed, or gave a different result from the WGTA. Approved TTOs identified by WGTA increased to 103 (16%) when applying 2021 guidelines. The histopathologic diagnosis was reviewed in 389 cases and agreed with the diagnostic consensus after WGTA in 94% of non-MTUH cases (n = 374). The remainder included situations where the morphologic diagnosis was changed based on WGTA and clinical data (0.5%), or where the WGTA was non-contributory (5%). The 15 MTUH were all diagnosed as specific tumor types by WGTA. Tumor board reviews including WGTA agreed with almost all initial predictive molecular profile and histopathologic diagnoses. WGTA was a powerful tool to assign site/tissue of origin in MTUH. Current efforts focus on improving therapeutic predictive power and decreasing cost to enhance use of WGTA data as a routine clinical test.
- Published
- 2022
3. Driving success towards zero carbon energy targets for UK’s Local Authorities
- Author
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Turnell, Helen, primary, Marques, Caterina, additional, Jones, Phil, additional, Dunham, Chris, additional, Revesz, Akos, additional, and Maidment, Graeme, additional
- Published
- 2023
- Full Text
- View/download PDF
4. The impact of whole genome and transcriptome analysis (WGTA) on predictive biomarker discovery and diagnostic accuracy of advanced malignancies.
- Author
-
Tessier-Cloutier, Basile, Tessier-Cloutier, Basile, Grewal, Jasleen K, Jones, Martin R, Pleasance, Erin, Shen, Yaoqing, Cai, Ellen, Dunham, Chris, Hoang, Lynn, Horst, Basil, Huntsman, David G, Ionescu, Diana, Karnezis, Anthony N, Lee, Anna F, Lee, Cheng Han, Lee, Tae Hoon, Twa, David Dw, Mungall, Andrew J, Mungall, Karen, Naso, Julia R, Ng, Tony, Schaeffer, David F, Sheffield, Brandon S, Skinnider, Brian, Smith, Tyler, Williamson, Laura, Zhong, Ellia, Regier, Dean A, Laskin, Janessa, Marra, Marco A, Gilks, C Blake, Jones, Steven Jm, Yip, Stephen, Tessier-Cloutier, Basile, Tessier-Cloutier, Basile, Grewal, Jasleen K, Jones, Martin R, Pleasance, Erin, Shen, Yaoqing, Cai, Ellen, Dunham, Chris, Hoang, Lynn, Horst, Basil, Huntsman, David G, Ionescu, Diana, Karnezis, Anthony N, Lee, Anna F, Lee, Cheng Han, Lee, Tae Hoon, Twa, David Dw, Mungall, Andrew J, Mungall, Karen, Naso, Julia R, Ng, Tony, Schaeffer, David F, Sheffield, Brandon S, Skinnider, Brian, Smith, Tyler, Williamson, Laura, Zhong, Ellia, Regier, Dean A, Laskin, Janessa, Marra, Marco A, Gilks, C Blake, Jones, Steven Jm, and Yip, Stephen
- Abstract
In this study, we evaluate the impact of whole genome and transcriptome analysis (WGTA) on predictive molecular profiling and histologic diagnosis in a cohort of advanced malignancies. WGTA was used to generate reports including molecular alterations and site/tissue of origin prediction. Two reviewers analyzed genomic reports, clinical history, and tumor pathology. We used National Comprehensive Cancer Network (NCCN) consensus guidelines, Food and Drug Administration (FDA) approvals, and provincially reimbursed treatments to define genomic biomarkers associated with approved targeted therapeutic options (TTOs). Tumor tissue/site of origin was reassessed for most cases using genomic analysis, including a machine learning algorithm (Supervised Cancer Origin Prediction Using Expression [SCOPE]) trained on The Cancer Genome Atlas data. WGTA was performed on 652 cases, including a range of primary tumor types/tumor sites and 15 malignant tumors of uncertain histogenesis (MTUH). At the time WGTA was performed, alterations associated with an approved TTO were identified in 39 (6%) cases; 3 of these were not identified through routine pathology workup. In seven (1%) cases, the pathology workup either failed, was not performed, or gave a different result from the WGTA. Approved TTOs identified by WGTA increased to 103 (16%) when applying 2021 guidelines. The histopathologic diagnosis was reviewed in 389 cases and agreed with the diagnostic consensus after WGTA in 94% of non-MTUH cases (n = 374). The remainder included situations where the morphologic diagnosis was changed based on WGTA and clinical data (0.5%), or where the WGTA was non-contributory (5%). The 15 MTUH were all diagnosed as specific tumor types by WGTA. Tumor board reviews including WGTA agreed with almost all initial predictive molecular profile and histopathologic diagnoses. WGTA was a powerful tool to assign site/tissue of origin in MTUH. Current efforts focus on improving therapeutic predictive power
- Published
- 2022
5. Ambient loop district heating and cooling networks with integrated mobility, power and interseasonal storage
- Author
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Revesz, Akos, primary, Jones, Phil, additional, Dunham, Chris, additional, Riddle, Anthony, additional, Gatensby, Norman, additional, and Maidment, Graeme, additional
- Published
- 2022
- Full Text
- View/download PDF
6. A holistic design approach for 5th generation smart local energy systems: Project GreenSCIES
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Revesz, Akos, primary, Dunham, Chris, additional, Jones, Phil, additional, Bond, Carole, additional, Fenner, Russell, additional, Mody, Sagar, additional, Nijjhar, Rajvant, additional, Marques, Catarina, additional, and Maidment, Graeme, additional
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- 2022
- Full Text
- View/download PDF
7. Opportunities and Challenges for Implementing Smart Local Energy Systems in Cities and Towns, Demonstrated Through Case Studies.
- Author
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Marques, Catarina, Dunham, Chris, Jones, Phil, Turnell, Helen, Revesz, Akos, and Maidment, Graeme
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CITIES & towns , *HEAT storage , *ELECTRIC vehicle charging stations , *HEAT recovery , *ELECTRIC networks , *SKYSCRAPERS - Abstract
Smart local energy systems (SLES) that integrate heat, power and mobility vectors are part of the UK strategy to reach net zero carbon by 2050. This paper investigates the opportunities and challenges for implementing SLES in cities and towns through case studies in two very different locations in the UK: London and the West Midlands. The blueprint for the GreenSCIES SLES was developed in Islington, London, and consists of a 5 th generation ambient loop district heat network with electric vehicles, storage and solar PV. This network allows for heat sharing between buildings and applications for heat recovery from local sources. A second case study explored the opportunities and challenges for improving a previously proposed conventional 3rd generation district heat network, which connects new developments and existing local authority high-rise apartments in the West Midlands, using the GreenSCIES blueprint. The initial design was expanded to include more existing domestic and non-domestic properties. The study evaluated heat recovery from industrial processes, interseasonal thermal storage in the aquifer and considered the opportunity for adding electric vehicle charging points along the network route. The results show a way to decarbonise heat across the whole area and provide a path to enable the electrification of transport. [ABSTRACT FROM AUTHOR]
- Published
- 2022
8. Post-mortem Examination of the Nervous System: Fresh versus Fixed
- Author
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Hammond, Robert, Dunham, Chris, McFadden, Deborah, Del Bigio, Marc, Perez-Rosendahl, Mari, and Vinters, Harry V.
- Abstract
ABSTRACT:Background:Post-mortem examination of the nervous system is a complex task that culminates in “brain cutting”. It relies on expertise in neuroanatomy, clinical neurosciences, neuroimaging and experience in order to recognise the most subtle abnormalities. Like any specialist examination in medicine, it warrants formal training, a standardised approach and optimal conditions. Revelations of aberrant tissue retention practices of a select few pathologists (e.g. Goudge, Liverpool and Alder Hey inquiries) and a motivated sociopolitical climate led some Canadian jurisdictions to impose broad restrictions on tissue retention. This raised concerns that nervous system examinations for diagnosis, education and research were at risk by limiting examinations to the fresh or incompletely fixed state. Professional experience indicates that cutting an unfixed or partly fixed brain is inferior.Methods:To add objectivity and further insight we sought the expert opinion of a group of qualified specialists. Canadian neuropathologists were surveyed for their opinion on the relative merits of examining brains in the fresh or fully fixed state.Results:A total of 14 out of 46 Canadian neuropathologists responded (30%). In the pervasive opinion of respondents, cutting and sampling a brain prior to full fixation leads to a loss of diagnostic accuracy, biosafety and academic deliverables.Conclusions:Brain cutting in the fresh state is significantly impaired along multiple dimensions of relevance to a pathologist’s professional roles and obligations.
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- 2022
- Full Text
- View/download PDF
9. Opportunities and Challenges for Low Carbon Heat Supply in Urban Neighbourhoods - A Central London Case Study.
- Author
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Revesz, Akos, Roszynski, Kristina, Dunham, Chris, Jones, Phil, Lagoeiro, Henrique, and Maidment, Graeme
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GREENHOUSE gas mitigation , *ENERGY consumption , *POWER resources - Abstract
In 2019, the UK became the first major economy to pass laws to reduce its greenhouse gas emissions to net zero by 2050. Meeting this ambitious target not only requires a shift in energy supply from fossil fuels to low carbon energy sources, but also a reduction in energy demand through the roll-out of energy efficiency improvements to existing buildings. The UK has some of the oldest and most inefficient housing stock in Western Europe and the building sector is responsible for approximately half of energy consumption. The present work has a strong focus on exploring low carbon heat supply tehcnologies could be applied to existing housing stock, using the London Borough of Islington (LBI) as a case study. The applicability of low carbon energy efficiency measures to a range of different building archetype prominent within LBI is discussed and evaluated. The methodology implemented includes both qualitative and quantitative assessment of the opportunities and benefits, with a focus on applicability, cost, and carbon savings associated with two low carbon heat supply options. The overall evaluation approach presented in the paper is applicable to other urban areas in the UK and elsewhere. Key conclusion from the study and planned next steps are also discussed. [ABSTRACT FROM AUTHOR]
- Published
- 2023
10. Meeting Net Zero Carbon Emission Targets: A case study tailored to local industry.
- Author
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Marques, Catarina, Turnell, Helen, Jones, Phil, Dunham, Chris, Fox, Matthew, Revesz, Akos, and Maidment, Graeme
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CARBON emissions , *HEATING from central stations , *HEAT storage , *NATURAL resources , *MINE water , *HEAT recovery , *SOLAR power plants , *OFFSHORE wind power plants - Abstract
This paper demonstrates the opportunity for UK local authorities to utilise waste heat from local industry to accelerate their success with meeting net zero emissions targets. It presents the results of a feasibility study for an urban area in Yorkshire, UK aimed at driving clean growth and decarbonisation in local industry together with investment in low carbon energy systems. This is an ambient loop district heating network design with sharing of heating between buildings and heat recovery from a local industry source, including mine water. This adapts the GreenSCIES concept developed initially for Islington, London, tailored to local council demands and local industry energy sources. The scheme would be based on a low temperature heat network with large, decentralised heat pumps to raise temperatures to that required in the connected buildings/dwellings. The heat source is low-grade waste-heat from a local glassworks which is readily accessible with minimal disruption to 24/7 operations. The scheme considered thermal storage and the integration of a 20MW solar PV farm and a 10MW windfarm. The results show that that it is possible to decarbonise large parts of the borough including their social housing stock. In addition, using old mine workings as a means of storing and recovering heat, allows seasonal storage of heat to act both as back-up and top-up to the heat available from the glassworks. This novel approach uses natural resources and builds on local industry to accelerate economic regeneration paving the way to net zero carbon emissions. [ABSTRACT FROM AUTHOR]
- Published
- 2023
11. The Importance of Heat Pump COP in the Economics of 5th Generation Heating and Cooling Networks.
- Author
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Revesz, Akos, Lagoeiro, Henrique, Marques, Catarina, Jones, Phil, Dunham, Chris, and Maidment, Graeme
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HEAT pumps , *HEATING , *CAPITAL investments , *REFRIGERANTS - Abstract
This paper describes the investigation of heat pumps for GreenSCIES, a 5th Generation heat network in Islington, London. The paper describes the GreenSCIES concept integrating Mobility, Power and Heat into a local energy system. At the heart of the system is a 5th generation heat network, which utilises an ambient heat network to capture secondary heat and share heat between different applications. The GreenSCIES network, technology utilised and buildings connected are described. Heat pumps are used to amplify the temperature of the ambient loop to deliver heat at the required temperature in connected buildings. A number of different heat pumps using different refrigerants and configurations were appraised in this study. This considered the performance, safety, environmental impact, operational and capital expenditure point of view. The study shows the importance of heat pump COP on the economics of operating the system and suggests innovative series arrangements in order to improve performance and economics. [ABSTRACT FROM AUTHOR]
- Published
- 2023
12. Driving Success Towards Zero Carbon Energy Targets for UK's Local Authorities.
- Author
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Turnell, Helen, Marques, Cat, Jones, Phil, Dunham, Chris, Revesz, Akos, and Maidment, Graeme
- Subjects
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WASTE heat , *ELECTRIC charge , *HEAT storage , *SERVER farms (Computer network management) , *CARBON emissions , *HEAT recovery , *HOMESITES - Abstract
This paper draws on three recent case studies which have shown encouraging economic results in meeting net-zero carbon emissions targets through Smart Local Energy Systems (SLES) in different localities across England, based on the GreenSCIES model. The blueprint for the GreenSCIES SLES was developed in Islington, London, and consists of a 5th generation ambient loop district heat network using heat from a large data centre, also including electric vehicle charging, storage and solar PV. This allows for heat sharing between buildings and applications for heat recovery from local sources. In Sandwell, Birmingham, where the heating demand is nearly ten times higher than the cooling demand the design is based on a 4th generation heat network with waste heat from a local metal foundry and some cooling supply and heat storage in the aquifer. The design for a study in Barnsley, Sheffield, explored waste heat from a local glass factory and considered old mine workings as a means of storing and recovering heat, providing seasonal storage of heat for resilience to a single source industry. With additional work, the Barnsley scheme could be further expanded, increasing the available carbon emissions savings. These examples provide practical, feasible and economic SLES projects which demonstrate the importance of collaboration between researchers, local government and industry. They also illustrate how the original GreenSCIES concept can be adapted successfully to provide a pathway towards netzero carbon for a diverse range of urban locations with different housing density and waste heat sources. [ABSTRACT FROM AUTHOR]
- Published
- 2023
13. Optimisation of Smart Local Energy Systems with Aquifer Thermal Energy Storage in Cities.
- Author
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Revesz, Akos, Williams, Huw, Findlay, John, Dunham, Chris, Jones, ,Phil, Moggeridge, Michael, Riddle, Anthony, and Maidment, Graeme
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HEAT storage , *GEOLOGICAL carbon sequestration , *AQUIFERS , *HYDROGEOLOGY , *BOREHOLES - Abstract
This paper provides an overview of a systematic approach for the performance optimisation of smart local energy systems (SLES) using central London, UK as a case study. Key components of the SLES are linked in decentralised energy centres, which are connected through an ultra-low temperature (also called ambient loop) 5th generation heating & cooling (5DHC) network. The 5DHC approach requires a means of balancing the heat and coolth in the ambient loop. This work has identified that the introduction of Aquifer thermal energy stores (ATES) system could be a novel way of achieving that balancing mechanism as well as to provide heat and coolth store interseasonally. This paper describes a comprehensive study, which investigated the potential of using the London aquifer system for supplying and balancing the thermal loads of a 5DHC network in Central London. The paper first introduces a currently ongoing detailed design project called GreenSCIES - Green Smart Community Integrated Energy Systems. Then it presents the methodology applied for evaluating the opportunity for implementing and optimising the scheme making use of an ATES system. Results of novel and comprehensive numerical groundwater modelling of the ATES system behaviour at the proposed location are presented and discussed in detail. Furthermore, the results are discussed in relation to optimal location, design and operational regime of the boreholes in order to achieve maximum performance of the proposed 5DHC scheme. [ABSTRACT FROM AUTHOR]
- Published
- 2022
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