38 results on '"Mac Aonghusa P"'
Search Results
2. Collaborative artificial intelligence system for investigation of healthcare claims compliance
- Author
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Sbodio, Marco Luca, López, Vanessa, Hoang, Thanh Lam, Brisimi, Theodora, Picco, Gabriele, Vejsbjerg, Inge, Rho, Valentina, Mac Aonghusa, Pol, Kristiansen, Morten, and Segrave-Daly, John
- Published
- 2024
- Full Text
- View/download PDF
3. Extracting, Visualizing, and Learning from Dynamic Data: Perfusion in Surgical Video for Tissue Characterization
- Author
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Epperlein, Jonathan P., Hardy, Niall P., Mac Aonghusa, Pol, and Cahill, Ronan A.
- Subjects
Electrical Engineering and Systems Science - Image and Video Processing ,J.3 - Abstract
Intraoperative assessment of tissue can be guided through fluorescence imaging which involves systemic dosing with a fluorophore and subsequent examination of the tissue region of interest with a near-infrared camera. This typically involves administering indocyanine green (ICG) hours or even days before surgery and intraoperative visualization at the time predicted for steady-state signal-to-background status. Here, we describe our efforts to capture and utilize the information contained in the first few minutes after ICG administration from the perspective of both signal processing and surgical practice. We prove a method for characterization of cancerous versus benign rectal lesions now undergoing further development and validation via multicenter clinical phase studies., Comment: Presented and published at IEEE International Conference on Digital Health (ICDH) 2022
- Published
- 2022
- Full Text
- View/download PDF
4. Collaborative artificial intelligence system for investigation of healthcare claims compliance
- Author
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Marco Luca Sbodio, Vanessa López, Thanh Lam Hoang, Theodora Brisimi, Gabriele Picco, Inge Vejsbjerg, Valentina Rho, Pol Mac Aonghusa, Morten Kristiansen, and John Segrave-Daly
- Subjects
Medicine ,Science - Abstract
Abstract Healthcare fraud, waste and abuse are costly problems that have huge impact on society. Traditional approaches to identify non-compliant claims rely on auditing strategies requiring trained professionals, or on machine learning methods requiring labelled data and possibly lacking interpretability. We present Clais, a collaborative artificial intelligence system for claims analysis. Clais automatically extracts human-interpretable rules from healthcare policy documents (0.72 F1-score), and it enables professionals to edit and validate the extracted rules through an intuitive user interface. Clais executes the rules on claim records to identify non-compliance: on this task Clais significantly outperforms two baseline machine learning models, and its median F1-score is 1.0 (IQR = 0.83 to 1.0) when executing the extracted rules, and 1.0 (IQR = 1.0 to 1.0) when executing the same rules after human curation. Professionals confirm through a user study the usefulness of Clais in making their workflow simpler and more effective.
- Published
- 2024
- Full Text
- View/download PDF
5. Perfusion Quantification from Endoscopic Videos: Learning to Read Tumor Signatures
- Author
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Zhuk, Sergiy, Epperlein, Jonathan P., Nair, Rahul, Thirupati, Seshu, Mac Aonghusa, Pol, Cahill, Ronan, and O'Shea, Donal
- Subjects
Electrical Engineering and Systems Science - Image and Video Processing ,Computer Science - Computer Vision and Pattern Recognition ,Computer Science - Machine Learning ,Quantitative Biology - Quantitative Methods - Abstract
Intra-operative identification of malignant versus benign or healthy tissue is a major challenge in fluorescence guided cancer surgery. We propose a perfusion quantification method for computer-aided interpretation of subtle differences in dynamic perfusion patterns which can be used to distinguish between normal tissue and benign or malignant tumors intra-operatively in real-time by using multispectral endoscopic videos. The method exploits the fact that vasculature arising from cancer angiogenesis gives tumors differing perfusion patterns from the surrounding tissue, and defines a signature of tumor which could be used to differentiate tumors from normal tissues. Experimental evaluation of our method on a cohort of colorectal cancer surgery endoscopic videos suggests that the proposed tumor signature is able to successfully discriminate between healthy, cancerous and benign tissue with 95% accuracy., Comment: To be published in 23rd International Conference on Medical Image Computing & Computer Assisted Intervention (MICCAI 2020)
- Published
- 2020
6. Using machine learning to extract information and predict outcomes from reports of randomised trials of smoking cessation interventions in the Human Behaviour-Change Project [version 1; peer review: 2 approved, 1 approved with reservations]
- Author
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Pol Mac Aonghusa, Alison J. Wright, Robert West, Janna Hastings, Yufang Hou, Alison O'Mara-Eves, Francesca Bonin, Martin Gleize, Susan Michie, Marie Johnston, and James Thomas
- Subjects
behaviour change interventions ,artificial intelligence ,machine learning ,natural language processing ,prediction systems ,information extractions ,eng ,Medicine ,Science - Abstract
Background Using reports of randomised trials of smoking cessation interventions as a test case, this study aimed to develop and evaluate machine learning (ML) algorithms for extracting information from study reports and predicting outcomes as part of the Human Behaviour-Change Project. It is the first of two linked papers, with the second paper reporting on further development of a prediction system. Methods Researchers manually annotated 70 items of information (‘entities’) in 512 reports of randomised trials of smoking cessation interventions covering intervention content and delivery, population, setting, outcome and study methodology using the Behaviour Change Intervention Ontology. These entities were used to train ML algorithms to extract the information automatically. The information extraction ML algorithm involved a named-entity recognition system using the ‘FLAIR’ framework. The manually annotated intervention, population, setting and study entities were used to develop a deep-learning algorithm using multiple layers of long-short-term-memory (LSTM) components to predict smoking cessation outcomes. Results The F1 evaluation score, derived from the false positive and false negative rates (range 0-1), for the information extraction algorithm averaged 0.42 across different types of entity (SD=0.22, range 0.05-0.88) compared with an average human annotator’s score of 0.75 (SD=0.15, range 0.38-1.00). The algorithm for assigning entities to study arms (e.g., intervention or control) was not successful. This initial ML outcome prediction algorithm did not outperform prediction based just on the mean outcome value or a linear regression model. Conclusions While some success was achieved in using ML to extract information from reports of randomised trials of smoking cessation interventions, we identified major challenges that could be addressed by greater standardisation in the way that studies are reported. Outcome prediction from smoking cessation studies may benefit from development of novel algorithms, e.g., using ontological information to inform ML (as reported in the linked paper (1)).
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- 2023
- Full Text
- View/download PDF
7. Diffprivlib: The IBM Differential Privacy Library
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Holohan, Naoise, Braghin, Stefano, Mac Aonghusa, Pól, and Levacher, Killian
- Subjects
Computer Science - Cryptography and Security ,Computer Science - Machine Learning - Abstract
Since its conception in 2006, differential privacy has emerged as the de-facto standard in data privacy, owing to its robust mathematical guarantees, generalised applicability and rich body of literature. Over the years, researchers have studied differential privacy and its applicability to an ever-widening field of topics. Mechanisms have been created to optimise the process of achieving differential privacy, for various data types and scenarios. Until this work however, all previous work on differential privacy has been conducted on a ad-hoc basis, without a single, unifying codebase to implement results. In this work, we present the IBM Differential Privacy Library, a general purpose, open source library for investigating, experimenting and developing differential privacy applications in the Python programming language. The library includes a host of mechanisms, the building blocks of differential privacy, alongside a number of applications to machine learning and other data analytics tasks. Simplicity and accessibility has been prioritised in developing the library, making it suitable to a wide audience of users, from those using the library for their first investigations in data privacy, to the privacy experts looking to contribute their own models and mechanisms for others to use.
- Published
- 2019
8. 3PS - Online Privacy through Group Identities
- Author
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Mac Aonghusa, Pol and Leith, Douglas
- Subjects
Computer Science - Cryptography and Security - Abstract
Limiting online data collection to the minimum required for specific purposes is mandated by modern privacy legislation such as the General Data Protection Regulation (GDPR) and the California Consumer Protection Act. This is particularly true in online services where broad collection of personal information represents an obvious concern for privacy. We challenge the view that broad personal data collection is required to provide personalised services. By first developing formal models of privacy and utility, we show how users can obtain personalised content, while retaining an ability to plausibly deny their interests in topics they regard as sensitive using a system of proxy, group identities we call 3PS. Through extensive experiment on a prototype implementation, using openly accessible data sources, we show that 3PS provides personalised content to individual users over 98% of the time in our tests, while protecting plausible deniability effectively in the face of worst-case threats from a variety of attack types., Comment: 14 pages
- Published
- 2018
9. The Bounded Laplace Mechanism in Differential Privacy
- Author
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Holohan, Naoise, Antonatos, Spiros, Braghin, Stefano, and Mac Aonghusa, Pól
- Subjects
Computer Science - Cryptography and Security - Abstract
The Laplace mechanism is the workhorse of differential privacy, applied to many instances where numerical data is processed. However, the Laplace mechanism can return semantically impossible values, such as negative counts, due to its infinite support. There are two popular solutions to this: (i) bounding/capping the output values and (ii) bounding the mechanism support. In this paper, we show that bounding the mechanism support, while using the parameters of the pure Laplace mechanism, does not typically preserve differential privacy. We also present a robust method to compute the optimal mechanism parameters to achieve differential privacy in such a setting.
- Published
- 2018
10. ($k$,$\epsilon$)-Anonymity: $k$-Anonymity with $\epsilon$-Differential Privacy
- Author
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Holohan, Naoise, Antonatos, Spiros, Braghin, Stefano, and Mac Aonghusa, Pól
- Subjects
Computer Science - Cryptography and Security ,Computer Science - Databases ,Mathematics - Probability - Abstract
The explosion in volume and variety of data offers enormous potential for research and commercial use. Increased availability of personal data is of particular interest in enabling highly customised services tuned to individual needs. Preserving the privacy of individuals against reidentification attacks in this fast-moving ecosystem poses significant challenges for a one-size fits all approach to anonymisation. In this paper we present ($k$,$\epsilon$)-anonymisation, an approach that combines the $k$-anonymisation and $\epsilon$-differential privacy models into a single coherent framework, providing privacy guarantees at least as strong as those offered by the individual models. Linking risks of less than 5\% are observed in experimental results, even with modest values of $k$ and $\epsilon$. Our approach is shown to address well-known limitations of $k$-anonymity and $\epsilon$-differential privacy and is validated in an extensive experimental campaign using openly available datasets.
- Published
- 2017
11. Plausible Deniability in Web Search -- From Detection to Assessment
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Mac Aonghusa, Pol and Leith, Douglas J.
- Subjects
Computer Science - Cryptography and Security - Abstract
We ask how to defend user ability to plausibly deny their interest in topics deemed sensitive in the face of search engine learning. We develop a practical and scalable tool called \PDE{} allowing a user to detect and assess threats to plausible deniability. We show that threats to plausible deniability of interest are readily detectable for all topics tested in an extensive testing program. Of particular concern is observation of threats to deniability of interest in topics related to health and sexual preferences. We show this remains the case when attempting to disrupt search engine learning through noise query injection and click obfuscation. We design a defence technique exploiting uninteresting, proxy topics and show that it provides a more effective defence of plausible deniability in our experiments., Comment: 14 pages, 1 figure. arXiv admin note: substantial text overlap with arXiv:1609.07922
- Published
- 2017
12. It wasn't me! Plausible Deniability in Web Search
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Mac Aonghusa, Pól and Leith, Douglas J.
- Subjects
Computer Science - Cryptography and Security ,Computer Science - Computers and Society - Abstract
Our ability to control the flow of sensitive personal information to online systems is key to trust in personal privacy on the internet. We ask how to detect, assess and defend user privacy in the face of search engine personalisation? We develop practical and scalable tools allowing a user to detect, assess and defend against threats to plausible deniability. We show that threats to plausible deniability of interest are readily detectable for all topics tested in an extensive testing program. We show this remains the case when attempting to disrupt search engine learning through noise query injection and click obfuscation are used. We use our model we design a defence technique exploiting uninteresting, proxy topics and show that it provides amore effective defence of plausible deniability in our experiments., Comment: 34 pages, 1 figure
- Published
- 2016
13. Don't let Google know I'm lonely!
- Author
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Mac Aonghusa, Pól and Leith, Douglas J.
- Subjects
Computer Science - Cryptography and Security ,Computer Science - Social and Information Networks - Abstract
From buying books to finding the perfect partner, we share our most intimate wants and needs with our favourite online systems. But how far should we accept promises of privacy in the face of personal profiling? In particular we ask how can we improve detection of sensitive topic profiling by online systems? We propose a definition of privacy disclosure we call {\epsilon}-indistinguishability from which we construct scalable, practical tools to assess an adversaries learning potential. We demonstrate our results using openly available resources, detecting a learning rate in excess of 98% for a range of sensitive topics during our experiments., Comment: 26 pages, 7 figures in ACM Transactions on Privacy and Security (TOPS), Volume 19 Issue 1, August 2016
- Published
- 2015
14. BF2-Azadipyrromethene Fluorophores for Intraoperative Vital Structure Identification
- Author
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Cathal Caulfield, Dan Wu, Ian S. Miller, Annette T. Byrne, Pól Mac Aonghusa, Sergiy Zhuk, Lorenzo Cinelli, Elisa Bannone, Jacques Marescaux, Sylvain Gioux, Michele Diana, Taryn L. March, Alexander L. Vahrmeijer, Ronan Cahill, and Donal F. O’Shea
- Subjects
BF2-azadipyrromethene ,pegylation ,NIR-fluorescence ,ureter identification ,fluorescence guided surgery ,Organic chemistry ,QD241-441 - Abstract
A series of mono- and bis-polyethylene glycol (PEG)-substituted BF2-azadipyrromethene fluorophores have been synthesized with emissions in the near-infrared region (700–800 nm) for the purpose of fluorescence guided intraoperative imaging; chiefly ureter imaging. The Bis-PEGylation of fluorophores resulted in higher aqueous fluorescence quantum yields, with PEG chain lengths of 2.9 to 4.6 kDa being optimal. Fluorescence ureter identification was possible in a rodent model with the preference for renal excretion notable through comparative fluorescence intensities from the ureters, kidneys and liver. Ureteral identification was also successfully performed in a larger animal porcine model under abdominal surgical conditions. Three tested doses of 0.5, 0.25 and 0.1 mg/kg all successfully identified fluorescent ureters within 20 min of administration which was sustained up to 120 min. 3-D emission heat map imaging allowed the spatial and temporal changes in intensity due to the distinctive peristaltic waves of urine being transferred from the kidneys to the bladder to be identified. As the emission of these fluorophores could be spectrally distinguished from the clinically-used perfusion dye indocyanine green, it is envisaged that their combined use could be a step towards intraoperative colour coding of different tissues.
- Published
- 2023
- Full Text
- View/download PDF
15. Correlation of national and healthcare workers COVID-19 infection data; implications for large-scale viral testing programs.
- Author
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Dan Wu, Pól Mac Aonghusa, and Donal F O'Shea
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Medicine ,Science - Abstract
Time analysis of the course of an infectious disease epidemic is a critical way to understand the dynamics of pathogen transmission and the effect of population scale interventions. Computational methods have been applied to the progression of the COVID-19 outbreak in five different countries (Ireland, Germany, UK, South Korea and Iceland) using their reported daily infection data. A Gaussian convolution smoothing function constructed a continuous epidemic line profile that was segmented into longitudinal time series of mathematically fitted individual logistic curves. The time series of fitted curves allowed comparison of disease progression with differences in decreasing daily infection numbers following the epidemic peak being of specific interest. A positive relationship between the rate of declining infections and countries with comprehensive COVID-19 testing regimes existed. Insight into different rates of decline infection numbers following the wave peak was also possible which could be a useful tool to guide the reopening of societies. In contrast, extended epidemic timeframes were recorded for those least prepared for large-scale testing and contact tracing. As many countries continue to struggle to implement population wide testing it is prudent to explore additional measures that could be employed. Comparative analysis of healthcare worker (HCW) infection data from Ireland shows it closely related to that of the entire population with respect to trends of daily infection numbers and growth rates over a 57-day period. With 31.6% of all test-confirmed infections in healthcare workers (all employees of healthcare facilities), they represent a concentrated 3% subset of the national population which if exhaustively tested (regardless of symptom status) could provide valuable information on disease progression in the entire population (or set). Mathematically, national population and HCWs can be viewed as a set and subset with significant influences on each other, with solidarity between both an essential ingredient for ending this crisis.
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- 2021
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16. The Bounded Laplace Mechanism in Differential Privacy
- Author
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Naoise Holohan, Spiros Antonatos, Stefano Braghin, and Pól Mac Aonghusa
- Subjects
Differential privacy ,Laplace mechanism ,consistency ,bounds ,bounded mechanism ,truncation ,Technology ,Social Sciences - Abstract
The Laplace mechanism is the workhorse of differential privacy, applied to many instances where numerical data is processed. However, the Laplace mechanism can return semantically impossible values, such as negative counts, due to its infinite support. There are two popular solutions to this: (i) bounding/capping the output values and (ii) bounding the mechanism support. In this paper, we show that bounding the mechanism support, while using the parameters of the standard Laplace mechanism, does not typically preserve differential privacy. We also present a robust method to compute the optimal mechanism parameters to achieve differential privacy in such a setting.
- Published
- 2019
- Full Text
- View/download PDF
17. The Human Behaviour-Change Project: harnessing the power of artificial intelligence and machine learning for evidence synthesis and interpretation
- Author
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Susan Michie, James Thomas, Marie Johnston, Pol Mac Aonghusa, John Shawe-Taylor, Michael P. Kelly, Léa A. Deleris, Ailbhe N. Finnerty, Marta M. Marques, Emma Norris, Alison O’Mara-Eves, and Robert West
- Subjects
Behaviour change interventions ,Implementation ,Ontology ,Machine learning ,Natural language processing ,Evidence synthesis ,Medicine (General) ,R5-920 - Abstract
Abstract Background Behaviour change is key to addressing both the challenges facing human health and wellbeing and to promoting the uptake of research findings in health policy and practice. We need to make better use of the vast amount of accumulating evidence from behaviour change intervention (BCI) evaluations and promote the uptake of that evidence into a wide range of contexts. The scale and complexity of the task of synthesising and interpreting this evidence, and increasing evidence timeliness and accessibility, will require increased computer support. The Human Behaviour-Change Project (HBCP) will use Artificial Intelligence and Machine Learning to (i) develop and evaluate a ‘Knowledge System’ that automatically extracts, synthesises and interprets findings from BCI evaluation reports to generate new insights about behaviour change and improve prediction of intervention effectiveness and (ii) allow users, such as practitioners, policy makers and researchers, to easily and efficiently query the system to get answers to variants of the question ‘What works, compared with what, how well, with what exposure, with what behaviours (for how long), for whom, in what settings and why?’. Methods The HBCP will: a) develop an ontology of BCI evaluations and their reports linking effect sizes for given target behaviours with intervention content and delivery and mechanisms of action, as moderated by exposure, populations and settings; b) develop and train an automated feature extraction system to annotate BCI evaluation reports using this ontology; c) develop and train machine learning and reasoning algorithms to use the annotated BCI evaluation reports to predict effect sizes for particular combinations of behaviours, interventions, populations and settings; d) build user and machine interfaces for interrogating and updating the knowledge base; and e) evaluate all the above in terms of performance and utility. Discussion The HBCP aims to revolutionise our ability to synthesise, interpret and deliver evidence on behaviour change interventions that is up-to-date and tailored to user need and context. This will enhance the usefulness, and support the implementation of, that evidence.
- Published
- 2017
- Full Text
- View/download PDF
18. HBCP Corpus: A New Resource for the Analysis of Behaviour Change Intervention Reports
- Author
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Bonin, F, Finnerty, A, Moore, C, Jochim, C, Norris, E, Hou, Y, Gleize, M, Ganguly, D, Wright, A, Hayes, E, Zink, S, Pascale, A, Mac Aonghusa, P, and Michie, S
- Abstract
Due to the fast pace at which research reports in behaviour change are published, researchers, consultants and policymakers would benefit from more automatic ways to process these reports. Automatic extraction of the reports’ intervention content, population, settings and their results etc. are essential in synthesising and summarising the literature. However, to the best of our knowledge, no unique resource exists at the moment to facilitate this synthesis. In this paper, we describe the construction of a corpus of published behaviour change intervention evaluation reports aimed at smoking cessation. We also describe and release the annotation of 57 entities, that can be used as an off-the-shelf data resource for tasks such as entity recognition, etc. Both the corpus and the annotation dataset are being made available to the community. Wellcome Trust collaborative award
- Published
- 2020
19. Artificial intelligence indocyanine green (ICG) perfusion for colorectal cancer intra-operative tissue classification
- Author
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Cahill, R A, primary, O’Shea, D F, additional, Khan, M F, additional, Khokhar, H A, additional, Epperlein, J P, additional, Mac Aonghusa, P G, additional, Nair, R, additional, and Zhuk, S M, additional
- Published
- 2020
- Full Text
- View/download PDF
20. Objective interrogation of signal presentation from surgical near-infrared fluorescence systems for user and computerised interpretation
- Author
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Elson, Daniel S., Gioux, Sylvain, Pogue, Brian W., Dalli, Jeffrey, Gallagher, Gareth, Jindal, Abhinav, Epperlein, Jonathan P., Hardy, Niall P., Malallah, Ra'ed, O'Donoghue, Kilian, Cantillon-Murphy, Padraig, Mac Aonghusa, Pol G., and Cahill, Ronan A.
- Published
- 2022
- Full Text
- View/download PDF
21. Unsupervised information extraction from behaviour change literature
- Author
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Ganguly, D, Deleris, LA, Mac Aonghusa, P, Wright, AJ, Finnerty, AN, Norris, E, Marques, MM, and Michie, S
- Subjects
Smoking Cessation ,Information Extraction ,Behavior Change - Abstract
This paper describes our approach to construct a scalable system for unsupervised information extraction from the behaviour change intervention literature. Due to the many different types of attribute to be extracted, we adopt a passage retrieval based framework that provides the most likely value for an attribute. Our proposed method is capable of addressing variable length passage sizes and different validation criteria for the extracted values corresponding to each attribute to be found. We evaluate our approach by constructing a manually annotated ground-truth from a set of 50 research papers with reported studies on smoking cessation. Wellcome Trust
- Published
- 2018
22. It wasn't me! Plausible Deniability in Web Search
- Author
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Mac Aonghusa, P��l and Leith, Douglas J.
- Subjects
FOS: Computer and information sciences ,Computers and Society (cs.CY) ,Cryptography and Security (cs.CR) - Abstract
Our ability to control the flow of sensitive personal information to online systems is key to trust in personal privacy on the internet. We ask how to detect, assess and defend user privacy in the face of search engine personalisation? We develop practical and scalable tools allowing a user to detect, assess and defend against threats to plausible deniability. We show that threats to plausible deniability of interest are readily detectable for all topics tested in an extensive testing program. We show this remains the case when attempting to disrupt search engine learning through noise query injection and click obfuscation are used. We use our model we design a defence technique exploiting uninteresting, proxy topics and show that it provides amore effective defence of plausible deniability in our experiments., 34 pages, 1 figure
- Published
- 2016
- Full Text
- View/download PDF
23. Don't let Google know I'm lonely!
- Author
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Mac Aonghusa, P��l and Leith, Douglas J.
- Subjects
Social and Information Networks (cs.SI) ,FOS: Computer and information sciences ,Cryptography and Security (cs.CR) - Abstract
From buying books to finding the perfect partner, we share our most intimate wants and needs with our favourite online systems. But how far should we accept promises of privacy in the face of personal profiling? In particular we ask how can we improve detection of sensitive topic profiling by online systems? We propose a definition of privacy disclosure we call ��-indistinguishability from which we construct scalable, practical tools to assess an adversaries learning potential. We demonstrate our results using openly available resources, detecting a learning rate in excess of 98% for a range of sensitive topics during our experiments., 26 pages, 7 figures in ACM Transactions on Privacy and Security (TOPS), Volume 19 Issue 1, August 2016
- Published
- 2015
- Full Text
- View/download PDF
24. Privacy protection in open information management platforms
- Author
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Gkoulalas-Divanis, A., primary and Mac Aonghusa, P., additional
- Published
- 2014
- Full Text
- View/download PDF
25. SPUD—Semantic Processing of Urban Data.
- Author
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Kotoulas, Spyros, Lopez, Vanessa, Lloyd, Raymond, Sbodio, Marco Luca, Lecue, Freddy, Stephenson, Martin, Daly, Elizabeth, Bicer, Veli, Gkoulalas-Divanis, Aris, Di Lorenzo, Giusy, Schumann, Anika, and Mac Aonghusa, Pol
- Abstract
Abstract: We present SPUD, a semantic environment for cataloging, exploring, integrating, understanding, processing and transforming urban information. A series of challenges are identified: namely, the heterogeneity of the domain and the impracticality of a common model, the volume of information and the number of data sets, the requirement for a low entry threshold to the system, the diversity of the input data, in terms of format, syntax and update frequency (streams vs static data), the complex data dependencies and the sensitivity of the information. We propose an approach for the incremental and continuous integration of static and streaming data, based on Semantic Web technologies and apply our technology to a traffic diagnosis scenario. We demonstrate our approach through a system operating on real data in Dublin and we show that semantic technologies can be used to obtain business results in an environment with hundreds of heterogeneous datasets coming from distributed data sources and spanning multiple domains. [Copyright &y& Elsevier]
- Published
- 2014
- Full Text
- View/download PDF
26. An extension of lévy's stochastic area formula.
- Author
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Mac aonghusa, P. and Pule, J. V.
- Published
- 1989
- Full Text
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27. Using machine learning to extract information and predict outcomes from reports of randomised trials of smoking cessation interventions in the Human Behaviour-Change Project.
- Author
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West R, Bonin F, Thomas J, Wright AJ, Mac Aonghusa P, Gleize M, Hou Y, O'Mara-Eves A, Hastings J, Johnston M, and Michie S
- Abstract
Background Using reports of randomised trials of smoking cessation interventions as a test case, this study aimed to develop and evaluate machine learning (ML) algorithms for extracting information from study reports and predicting outcomes as part of the Human Behaviour-Change Project. It is the first of two linked papers, with the second paper reporting on further development of a prediction system. Methods Researchers manually annotated 70 items of information ('entities') in 512 reports of randomised trials of smoking cessation interventions covering intervention content and delivery, population, setting, outcome and study methodology using the Behaviour Change Intervention Ontology. These entities were used to train ML algorithms to extract the information automatically. The information extraction ML algorithm involved a named-entity recognition system using the 'FLAIR' framework. The manually annotated intervention, population, setting and study entities were used to develop a deep-learning algorithm using multiple layers of long-short-term-memory (LSTM) components to predict smoking cessation outcomes. Results The F1 evaluation score, derived from the false positive and false negative rates (range 0-1), for the information extraction algorithm averaged 0.42 across different types of entity (SD=0.22, range 0.05-0.88) compared with an average human annotator's score of 0.75 (SD=0.15, range 0.38-1.00). The algorithm for assigning entities to study arms ( e.g. , intervention or control) was not successful. This initial ML outcome prediction algorithm did not outperform prediction based just on the mean outcome value or a linear regression model. Conclusions While some success was achieved in using ML to extract information from reports of randomised trials of smoking cessation interventions, we identified major challenges that could be addressed by greater standardisation in the way that studies are reported. Outcome prediction from smoking cessation studies may benefit from development of novel algorithms, e.g. , using ontological information to inform ML (as reported in the linked paper
3 )., Competing Interests: Competing interests: RW and SM are unpaid directors of the Unlocking Behaviour Change Community Interest Company., (Copyright: © 2023 West R et al.)- Published
- 2023
- Full Text
- View/download PDF
28. BF 2 -Azadipyrromethene Fluorophores for Intraoperative Vital Structure Identification.
- Author
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Caulfield C, Wu D, Miller IS, Byrne AT, Mac Aonghusa P, Zhuk S, Cinelli L, Bannone E, Marescaux J, Gioux S, Diana M, March TL, Vahrmeijer AL, Cahill R, and O'Shea DF
- Subjects
- Swine, Animals, Fluorescent Dyes chemistry, Kidney, Urinary Bladder, Polyethylene Glycols chemistry, Optical Imaging methods, Spectroscopy, Near-Infrared methods, Ureter
- Abstract
A series of mono- and bis-polyethylene glycol (PEG)-substituted BF
2 -azadipyrromethene fluorophores have been synthesized with emissions in the near-infrared region (700-800 nm) for the purpose of fluorescence guided intraoperative imaging; chiefly ureter imaging. The Bis-PEGylation of fluorophores resulted in higher aqueous fluorescence quantum yields, with PEG chain lengths of 2.9 to 4.6 kDa being optimal. Fluorescence ureter identification was possible in a rodent model with the preference for renal excretion notable through comparative fluorescence intensities from the ureters, kidneys and liver. Ureteral identification was also successfully performed in a larger animal porcine model under abdominal surgical conditions. Three tested doses of 0.5, 0.25 and 0.1 mg/kg all successfully identified fluorescent ureters within 20 min of administration which was sustained up to 120 min. 3-D emission heat map imaging allowed the spatial and temporal changes in intensity due to the distinctive peristaltic waves of urine being transferred from the kidneys to the bladder to be identified. As the emission of these fluorophores could be spectrally distinguished from the clinically-used perfusion dye indocyanine green, it is envisaged that their combined use could be a step towards intraoperative colour coding of different tissues.- Published
- 2023
- Full Text
- View/download PDF
29. The age of surgical operative video big data - My bicycle or our park?
- Author
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Cahill RA, Mac Aonghusa P, and Mortensen N
- Subjects
- Bicycling, Humans, Quality Improvement, Video Recording, Big Data, Physician-Patient Relations
- Abstract
Background: Surgery is a major component of health-care provision. Operative intervention often employs minimally invasive approaches incorporating digital cameras creating a 'digital twin' of both intracorporeal appearances and operative performance. Video recordings provide richer detail than the traditional operative note and can couple with advanced computer technology to unlock new analytic capabilities capable of driving surgical advancement via quality improvement initiatives and new technology design. Surgical video is however an under-utilized technology resource, in part, because ownership along with broader issues including purpose, privacy, confidentiality, copyright and inclusion in outputs have been poorly considered using outdated categorisation., Method: A first principles perspective on operative video classification as a useful public interest resource enshrining fundamental stakeholder (patients, physicians, institutions, industry and society) rights, roles and responsibilities., Result: A facility of noble purpose, understandable to all, for fair, accountable, safe and transparent access to large volumes of anonymised surgical videos of intracorporeal operations that enables advances through cross-disciplinary research is proposed. Technology can be exploited to protect all relevant parties respecting both citizen data-rights and the special status doctor-patient relationship. Through general consensus, the capability can be understood, established and iterated to perfection., Conclusion: Overall we argue that new and specific classification of surgical video enables responsible curation and serves the public good better than the current model. Rather than being thought of as a bicycle where discrete ownership is ascribed, such data are better viewed as being more like a park, a regulated amenity we should preserve for better human life., Competing Interests: Declaration of competing interest RC receives speaker fees from Stryker Corporation, speaker fees from Stryker Corporation, Olympus Corporation and Ethicon/JNJ, consulting fees from Distalmotion, Touch Surgery and Palliare and holds research funding from Intutive Corp and Medtronic. consulting fees from Distal Motion and Touch Surgery and holds research funding from Intuitive Corp. PMA is a full-time employee of IBM Research, a division of IBM Corporation. IBM Corporation provides technical products and services world-wide to government, healthcare and life-sciences companies. RC and PMA together hold research funding from the Irish Government for work related to surgical video analysis which provides background to how this Perspective generated. NM has no conflicts of interest to declare in relation to this work., (Copyright © 2021 The Author(s). Published by Elsevier Ltd.. All rights reserved.)
- Published
- 2022
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30. Outcome Prediction from Behaviour Change Intervention Evaluations using a Combination of Node and Word Embedding.
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Ganguly D, Gleize M, Hou Y, Jochim C, Bonin F, Pascale A, Tommasi P, Mac Aonghusa P, West R, Johnston M, Kelly M, and Michie S
- Subjects
- Humans, Knowledge, Prognosis, Text Messaging
- Abstract
Findings from randomized controlled trials (RCTs) of behaviour change interventions encode much of our knowledge on intervention efficacy under defined conditions. Predicting outcomes of novel interventions in novel conditions can be challenging, as can predicting differences in outcomes between different interventions or different conditions. To predict outcomes from RCTs, we propose a generic framework of combining the information from two sources - i) the instances (comprised of surrounding text and their numeric values) of relevant attributes, namely the intervention, setting and population characteristics of a study, and ii) abstract representation of the categories of these attributes themselves. We demonstrate that this way of encoding both the information about an attribute and its value when used as an embedding layer within a standard deep sequence modeling setup improves the outcome prediction effectiveness., (©2021 AMIA - All rights reserved.)
- Published
- 2022
31. Practical Perfusion Quantification in Multispectral Endoscopic Video: Using the Minutes after ICG Administration to Assess Tissue Pathology.
- Author
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Epperlein JP, Zayats M, Tirupathi S, Zhuk S, Tchrakian T, Mac Aonghusa P, O'Shea DF, Hardy NP, Dalli J, and Cahill RA
- Subjects
- Diagnostic Imaging, Humans, Perfusion, Fluorescent Dyes, Indocyanine Green
- Abstract
The wide availability of near infrared light sources in interventional medical imaging stacks enables non-invasive quantification of perfusion by using fluorescent dyes, typically Indocyanine Green (ICG). Due to their often leaky and chaotic vasculatures, intravenously administered ICG perfuses through cancerous tissues differently. We investigate here how a few characteristic values derived from the time series of fluorescence can be used in simple machine learning algorithms to distinguish benign lesions from cancers. These features capture the initial uptake of ICG in the colon, its peak fluorescence, and its early wash-out. By using simple, explainable algorithms we demonstrate, in clinical cases, that sensitivity (specificity) rates of over 95% (95%) for cancer classification can be achieved., (©2021 AMIA - All rights reserved.)
- Published
- 2022
32. Intraprocedural Artificial Intelligence for Colorectal Cancer Detection and Characterisation in Endoscopy and Laparoscopy.
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Hardy NP, Mac Aonghusa P, Neary PM, and Cahill RA
- Subjects
- Artificial Intelligence, Colonoscopy, Endoscopy, Gastrointestinal, Humans, Colorectal Neoplasms diagnosis, Laparoscopy
- Abstract
In this article, we provide an evidence-based primer of current tools and evolving concepts in the area of intraprocedural artificial intelligence (AI) methods in colonoscopy and laparoscopy as a 'procedure companion', with specific focus on colorectal cancer recognition and characterisation. These interventions are both likely beneficiaries from an impending rapid phase in technical and technological evolution. The domains where AI is most likely to impact are explored as well as the methodological pitfalls pertaining to AI methods. Such issues include the need for large volumes of data to train AI systems, questions surrounding false positive rates, explainability and interpretability as well as recent concerns surrounding instabilities in current deep learning (DL) models. The area of biophysics-inspired models, a potential remedy to some of these pitfalls, is explored as it could allow our understanding of the fundamental physiological differences between tissue types to be exploited in real time with the help of computer-assisted interpretation. Right now, such models can include data collected from dynamic fluorescence imaging in surgery to characterise lesions by their biology reducing the number of cases needed to build a reliable and interpretable classification system. Furthermore, instead of focussing on image-by-image analysis, such systems could analyse in a continuous fashion, more akin to how we view procedures in real life and make decisions in a manner more comparable to human decision-making. Synergistical approaches can ensure AI methods usefully embed within practice thus safeguarding against collapse of this exciting field of investigation as another 'boom and bust' cycle of AI endeavour.
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- 2021
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33. Correlation of national and healthcare workers COVID-19 infection data; implications for large-scale viral testing programs.
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Wu D, Mac Aonghusa P, and O'Shea DF
- Subjects
- Algorithms, COVID-19 epidemiology, COVID-19 transmission, COVID-19 virology, COVID-19 Testing, Databases, Factual, Humans, Ireland epidemiology, Logistic Models, SARS-CoV-2 isolation & purification, COVID-19 pathology, Health Personnel statistics & numerical data, Mass Screening methods
- Abstract
Time analysis of the course of an infectious disease epidemic is a critical way to understand the dynamics of pathogen transmission and the effect of population scale interventions. Computational methods have been applied to the progression of the COVID-19 outbreak in five different countries (Ireland, Germany, UK, South Korea and Iceland) using their reported daily infection data. A Gaussian convolution smoothing function constructed a continuous epidemic line profile that was segmented into longitudinal time series of mathematically fitted individual logistic curves. The time series of fitted curves allowed comparison of disease progression with differences in decreasing daily infection numbers following the epidemic peak being of specific interest. A positive relationship between the rate of declining infections and countries with comprehensive COVID-19 testing regimes existed. Insight into different rates of decline infection numbers following the wave peak was also possible which could be a useful tool to guide the reopening of societies. In contrast, extended epidemic timeframes were recorded for those least prepared for large-scale testing and contact tracing. As many countries continue to struggle to implement population wide testing it is prudent to explore additional measures that could be employed. Comparative analysis of healthcare worker (HCW) infection data from Ireland shows it closely related to that of the entire population with respect to trends of daily infection numbers and growth rates over a 57-day period. With 31.6% of all test-confirmed infections in healthcare workers (all employees of healthcare facilities), they represent a concentrated 3% subset of the national population which if exhaustively tested (regardless of symptom status) could provide valuable information on disease progression in the entire population (or set). Mathematically, national population and HCWs can be viewed as a set and subset with significant influences on each other, with solidarity between both an essential ingredient for ending this crisis., Competing Interests: The authors have declared that no competing interests exist. Commercial affiliations of the authors do not alter adherence to PLOS ONE policies on sharing data and materials.
- Published
- 2021
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34. Artificial intelligence indocyanine green (ICG) perfusion for colorectal cancer intra-operative tissue classification.
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Cahill RA, O'Shea DF, Khan MF, Khokhar HA, Epperlein JP, Mac Aonghusa PG, Nair R, and Zhuk SM
- Subjects
- Aged, Aged, 80 and over, Colorectal Neoplasms diagnosis, Colorectal Neoplasms pathology, Colorectal Neoplasms surgery, Female, Humans, Intraoperative Period, Male, Middle Aged, Artificial Intelligence, Colorectal Neoplasms classification, Coloring Agents, Indocyanine Green, Perfusion Imaging methods
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- 2021
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35. Artificial Intelligence and Behavioral Science Through the Looking Glass: Challenges for Real-World Application.
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Mac Aonghusa P and Michie S
- Subjects
- Humans, Artificial Intelligence, Behavior Therapy methods, Behavior Therapy statistics & numerical data, Behavioral Sciences methods, Behavioral Sciences statistics & numerical data, Health Behavior, Outcome and Process Assessment, Health Care methods, Outcome and Process Assessment, Health Care statistics & numerical data
- Abstract
Background: Artificial Intelligence (AI) is transforming the process of scientific research. AI, coupled with availability of large datasets and increasing computational power, is accelerating progress in areas such as genetics, climate change and astronomy [NeurIPS 2019 Workshop Tackling Climate Change with Machine Learning, Vancouver, Canada; Hausen R, Robertson BE. Morpheus: A deep learning framework for the pixel-level analysis of astronomical image data. Astrophys J Suppl Ser. 2020;248:20; Dias R, Torkamani A. AI in clinical and genomic diagnostics. Genome Med. 2019;11:70.]. The application of AI in behavioral science is still in its infancy and realizing the promise of AI requires adapting current practices., Purposes: By using AI to synthesize and interpret behavior change intervention evaluation report findings at a scale beyond human capability, the HBCP seeks to improve the efficiency and effectiveness of research activities. We explore challenges facing AI adoption in behavioral science through the lens of lessons learned during the Human Behaviour-Change Project (HBCP)., Methods: The project used an iterative cycle of development and testing of AI algorithms. Using a corpus of published research reports of randomized controlled trials of behavioral interventions, behavioral science experts annotated occurrences of interventions and outcomes. AI algorithms were trained to recognize natural language patterns associated with interventions and outcomes from the expert human annotations. Once trained, the AI algorithms were used to predict outcomes for interventions that were checked by behavioral scientists., Results: Intervention reports contain many items of information needing to be extracted and these are expressed in hugely variable and idiosyncratic language used in research reports to convey information makes developing algorithms to extract all the information with near perfect accuracy impractical. However, statistical matching algorithms combined with advanced machine learning approaches created reasonably accurate outcome predictions from incomplete data., Conclusions: AI holds promise for achieving the goal of predicting outcomes of behavior change interventions, based on information that is automatically extracted from intervention evaluation reports. This information can be used to train knowledge systems using machine learning and reasoning algorithms., (© The Author(s) 2021. Published by Oxford University Press on behalf of the Society of Behavioral Medicine.)
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- 2020
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36. The Human Behaviour-Change Project: An artificial intelligence system to answer questions about changing behaviour.
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Michie S, Thomas J, Mac Aonghusa P, West R, Johnston M, Kelly MP, Shawe-Taylor J, Hastings J, Bonin F, and O'Mara-Eves A
- Abstract
Changing behaviour is necessary to address many of the threats facing human populations. However, identifying behaviour change interventions likely to be effective in particular contexts as a basis for improving them presents a major challenge. The Human Behaviour-Change Project harnesses the power of artificial intelligence and behavioural science to organise global evidence about behaviour change to predict outcomes in common and unknown behaviour change scenarios., Competing Interests: No competing interests were disclosed., (Copyright: © 2020 Michie S et al.)
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- 2020
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37. Unsupervised Information Extraction from Behaviour Change Literature.
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Ganguly D, Deleris LA, Mac Aonghusa P, Wright AJ, Finnerty AN, Norris E, Marques MM, and Michie S
- Subjects
- Humans, Machine Learning, Information Storage and Retrieval, Smoking Cessation
- Abstract
This paper describes our approach to construct a scalable system for unsupervised information extraction from the behaviour change intervention literature. Due to the many different types of attribute to be extracted, we adopt a passage retrieval based framework that provides the most likely value for an attribute. Our proposed method is capable of addressing variable length passage sizes and different validation criteria for the extracted values corresponding to each attribute to be found. We evaluate our approach by constructing a manually annotated ground-truth from a set of 50 research papers with reported studies on smoking cessation.
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- 2018
38. Enabling Person-Centric Care using linked data technologies.
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Kotoulas S, Sedlazek W, Lopez V, Sbodio M, Stephenson M, Tommasi P, and Mac Aonghusa P
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- Information Storage and Retrieval methods, Biomedical Technology organization & administration, Delivery of Health Care, Integrated organization & administration, Electronic Health Records organization & administration, Health Records, Personal, Meaningful Use organization & administration, Medical Record Linkage methods, Patient-Centered Care organization & administration
- Abstract
Patient-Centric Care requires comprehensive visibility into the strengths and vulnerabilities of individuals and populations. The systems involved in Patient-Centric Care are numerous and heterogeneous, span medical, behavioral and social domains and must be coordinated across government and NGO stakeholders in Health Care, Social Care and more. We present a system, based on Linked Data technologies, taking first steps in making this cross-domain information accessible and fit-for-use, using minimal structure and open vocabularies. We evaluate our system through user studies.
- Published
- 2014
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