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  1. Article ; Online: Deep learning of HIV field-based rapid tests.

    Turbé, Valérian / Herbst, Carina / Mngomezulu, Thobeka / Meshkinfamfard, Sepehr / Dlamini, Nondumiso / Mhlongo, Thembani / Smit, Theresa / Cherepanova, Valeriia / Shimada, Koki / Budd, Jobie / Arsenov, Nestor / Gray, Steven / Pillay, Deenan / Herbst, Kobus / Shahmanesh, Maryam / McKendry, Rachel A

    Nature medicine

    2021  Volume 27, Issue 7, Page(s) 1165–1170

    Abstract: Although deep learning algorithms show increasing promise for disease diagnosis, their use with rapid diagnostic tests performed in the field has not been extensively tested. Here we use deep learning to classify images of rapid human immunodeficiency ... ...

    Abstract Although deep learning algorithms show increasing promise for disease diagnosis, their use with rapid diagnostic tests performed in the field has not been extensively tested. Here we use deep learning to classify images of rapid human immunodeficiency virus (HIV) tests acquired in rural South Africa. Using newly developed image capture protocols with the Samsung SM-P585 tablet, 60 fieldworkers routinely collected images of HIV lateral flow tests. From a library of 11,374 images, deep learning algorithms were trained to classify tests as positive or negative. A pilot field study of the algorithms deployed as a mobile application demonstrated high levels of sensitivity (97.8%) and specificity (100%) compared with traditional visual interpretation by humans-experienced nurses and newly trained community health worker staff-and reduced the number of false positives and false negatives. Our findings lay the foundations for a new paradigm of deep learning-enabled diagnostics in low- and middle-income countries, termed REASSURED diagnostics
    MeSH term(s) AIDS Serodiagnosis/methods ; Algorithms ; Deep Learning ; HIV Infections/diagnosis ; Humans ; Rural Health Services/organization & administration ; Sensitivity and Specificity ; South Africa ; Time and Motion Studies
    Language English
    Publishing date 2021-06-17
    Publishing country United States
    Document type Journal Article
    ZDB-ID 1220066-9
    ISSN 1546-170X ; 1078-8956
    ISSN (online) 1546-170X
    ISSN 1078-8956
    DOI 10.1038/s41591-021-01384-9
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Taking connected mobile-health diagnostics of infectious diseases to the field.

    Wood, Christopher S / Thomas, Michael R / Budd, Jobie / Mashamba-Thompson, Tivani P / Herbst, Kobus / Pillay, Deenan / Peeling, Rosanna W / Johnson, Anne M / McKendry, Rachel A / Stevens, Molly M

    Nature

    2019  Volume 566, Issue 7745, Page(s) 467–474

    Abstract: Mobile health, or 'mHealth', is the application of mobile devices, their components and related technologies to healthcare. It is already improving patients' access to treatment and advice. Now, in combination with internet-connected diagnostic devices, ... ...

    Abstract Mobile health, or 'mHealth', is the application of mobile devices, their components and related technologies to healthcare. It is already improving patients' access to treatment and advice. Now, in combination with internet-connected diagnostic devices, it offers novel ways to diagnose, track and control infectious diseases and to improve the efficiency of the health system. Here we examine the promise of these technologies and discuss the challenges in realizing their potential to increase patients' access to testing, aid in their treatment and improve the capability of public health authorities to monitor outbreaks, implement response strategies and assess the impact of interventions across the world.
    MeSH term(s) Communicable Disease Control/methods ; Communicable Disease Control/organization & administration ; Communicable Diseases/diagnosis ; Communicable Diseases/epidemiology ; Communicable Diseases/therapy ; Communicable Diseases/transmission ; Contact Tracing ; Data Analysis ; Disease Outbreaks/prevention & control ; Disease Outbreaks/statistics & numerical data ; Humans ; Point-of-Care Systems ; Public Health/methods ; Public Health/trends ; Smartphone ; Telemedicine/methods ; Telemedicine/organization & administration ; Telemedicine/trends
    Language English
    Publishing date 2019-02-27
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 120714-3
    ISSN 1476-4687 ; 0028-0836
    ISSN (online) 1476-4687
    ISSN 0028-0836
    DOI 10.1038/s41586-019-0956-2
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Digital technologies in the public-health response to COVID-19.

    Budd, Jobie / Miller, Benjamin S / Manning, Erin M / Lampos, Vasileios / Zhuang, Mengdie / Edelstein, Michael / Rees, Geraint / Emery, Vincent C / Stevens, Molly M / Keegan, Neil / Short, Michael J / Pillay, Deenan / Manley, Ed / Cox, Ingemar J / Heymann, David / Johnson, Anne M / McKendry, Rachel A

    Nature medicine

    2020  Volume 26, Issue 8, Page(s) 1183–1192

    Abstract: Digital technologies are being harnessed to support the public-health response to COVID-19 worldwide, including population surveillance, case identification, contact tracing and evaluation of interventions on the basis of mobility data and communication ... ...

    Abstract Digital technologies are being harnessed to support the public-health response to COVID-19 worldwide, including population surveillance, case identification, contact tracing and evaluation of interventions on the basis of mobility data and communication with the public. These rapid responses leverage billions of mobile phones, large online datasets, connected devices, relatively low-cost computing resources and advances in machine learning and natural language processing. This Review aims to capture the breadth of digital innovations for the public-health response to COVID-19 worldwide and their limitations, and barriers to their implementation, including legal, ethical and privacy barriers, as well as organizational and workforce barriers. The future of public health is likely to become increasingly digital, and we review the need for the alignment of international strategies for the regulation, evaluation and use of digital technologies to strengthen pandemic management, and future preparedness for COVID-19 and other infectious diseases.
    MeSH term(s) Betacoronavirus/pathogenicity ; COVID-19 ; Coronavirus Infections/epidemiology ; Coronavirus Infections/prevention & control ; Coronavirus Infections/virology ; Humans ; Machine Learning ; Natural Language Processing ; Pandemics/prevention & control ; Pandemics/statistics & numerical data ; Pneumonia, Viral/epidemiology ; Pneumonia, Viral/prevention & control ; Pneumonia, Viral/virology ; Population Surveillance ; Privacy ; Public Health/statistics & numerical data ; SARS-CoV-2
    Keywords covid19
    Language English
    Publishing date 2020-08-07
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 1220066-9
    ISSN 1546-170X ; 1078-8956
    ISSN (online) 1546-170X
    ISSN 1078-8956
    DOI 10.1038/s41591-020-1011-4
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Digital technologies in the public-health response to COVID-19

    Budd, Jobie / Miller, Benjamin S. / Manning, Erin M. / Lampos, Vasileios / Zhuang, Mengdie / Edelstein, Michael / Rees, Geraint / Emery, Vincent C. / Stevens, Molly M. / Keegan, Neil / Short, Michael J. / Pillay, Deenan / Manley, Ed / Cox, Ingemar J. / Heymann, David / Johnson, Anne M. / McKendry, Rachel A.

    Nature Medicine

    2020  Volume 26, Issue 8, Page(s) 1183–1192

    Keywords General Biochemistry, Genetics and Molecular Biology ; General Medicine ; covid19
    Language English
    Publisher Springer Science and Business Media LLC
    Publishing country us
    Document type Article ; Online
    ZDB-ID 1220066-9
    ISSN 1546-170X ; 1078-8956
    ISSN (online) 1546-170X
    ISSN 1078-8956
    DOI 10.1038/s41591-020-1011-4
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  5. Book ; Online: Statistical Design and Analysis for Robust Machine Learning

    Pigoli, Davide / Baker, Kieran / Budd, Jobie / Butler, Lorraine / Coppock, Harry / Egglestone, Sabrina / Gilmour, Steven G. / Holmes, Chris / Hurley, David / Jersakova, Radka / Kiskin, Ivan / Koutra, Vasiliki / Mellor, Jonathon / Nicholson, George / Packham, Joe / Patel, Selina / Payne, Richard / Roberts, Stephen J. / Schuller, Björn W. /
    Tendero-Cañadas, Ana / Thornley, Tracey / Titcomb, Alexander

    A Case Study from COVID-19

    2022  

    Abstract: Since early in the coronavirus disease 2019 (COVID-19) pandemic, there has been interest in using artificial intelligence methods to predict COVID-19 infection status based on vocal audio signals, for example cough recordings. However, existing studies ... ...

    Abstract Since early in the coronavirus disease 2019 (COVID-19) pandemic, there has been interest in using artificial intelligence methods to predict COVID-19 infection status based on vocal audio signals, for example cough recordings. However, existing studies have limitations in terms of data collection and of the assessment of the performances of the proposed predictive models. This paper rigorously assesses state-of-the-art machine learning techniques used to predict COVID-19 infection status based on vocal audio signals, using a dataset collected by the UK Health Security Agency. This dataset includes acoustic recordings and extensive study participant meta-data. We provide guidelines on testing the performance of methods to classify COVID-19 infection status based on acoustic features and we discuss how these can be extended more generally to the development and assessment of predictive methods based on public health datasets.
    Keywords Computer Science - Sound ; Computer Science - Machine Learning ; Electrical Engineering and Systems Science - Audio and Speech Processing ; Statistics - Applications
    Subject code 006
    Publishing date 2022-12-15
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Book ; Online: Audio-based AI classifiers show no evidence of improved COVID-19 screening over simple symptoms checkers

    Coppock, Harry / Nicholson, George / Kiskin, Ivan / Koutra, Vasiliki / Baker, Kieran / Budd, Jobie / Payne, Richard / Karoune, Emma / Hurley, David / Titcomb, Alexander / Egglestone, Sabrina / Cañadas, Ana Tendero / Butler, Lorraine / Jersakova, Radka / Mellor, Jonathon / Patel, Selina / Thornley, Tracey / Diggle, Peter / Richardson, Sylvia /
    Packham, Josef / Schuller, Björn W. / Pigoli, Davide / Gilmour, Steven / Roberts, Stephen / Holmes, Chris

    2022  

    Abstract: Recent work has reported that AI classifiers trained on audio recordings can accurately predict severe acute respiratory syndrome coronavirus 2 (SARSCoV2) infection status. Here, we undertake a large scale study of audio-based deep learning classifiers, ... ...

    Abstract Recent work has reported that AI classifiers trained on audio recordings can accurately predict severe acute respiratory syndrome coronavirus 2 (SARSCoV2) infection status. Here, we undertake a large scale study of audio-based deep learning classifiers, as part of the UK governments pandemic response. We collect and analyse a dataset of audio recordings from 67,842 individuals with linked metadata, including reverse transcription polymerase chain reaction (PCR) test outcomes, of whom 23,514 tested positive for SARS CoV 2. Subjects were recruited via the UK governments National Health Service Test-and-Trace programme and the REal-time Assessment of Community Transmission (REACT) randomised surveillance survey. In an unadjusted analysis of our dataset AI classifiers predict SARS-CoV-2 infection status with high accuracy (Receiver Operating Characteristic Area Under the Curve (ROCAUC) 0.846 [0.838, 0.854]) consistent with the findings of previous studies. However, after matching on measured confounders, such as age, gender, and self reported symptoms, our classifiers performance is much weaker (ROC-AUC 0.619 [0.594, 0.644]). Upon quantifying the utility of audio based classifiers in practical settings, we find them to be outperformed by simple predictive scores based on user reported symptoms.
    Keywords Computer Science - Sound ; Computer Science - Machine Learning ; Electrical Engineering and Systems Science - Audio and Speech Processing
    Subject code 150
    Publishing date 2022-12-15
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  7. Book ; Online: A large-scale and PCR-referenced vocal audio dataset for COVID-19

    Budd, Jobie / Baker, Kieran / Karoune, Emma / Coppock, Harry / Patel, Selina / Cañadas, Ana Tendero / Titcomb, Alexander / Payne, Richard / Hurley, David / Egglestone, Sabrina / Butler, Lorraine / Mellor, Jonathon / Nicholson, George / Kiskin, Ivan / Koutra, Vasiliki / Jersakova, Radka / McKendry, Rachel A. / Diggle, Peter / Richardson, Sylvia /
    Schuller, Björn W. / Gilmour, Steven / Pigoli, Davide / Roberts, Stephen / Packham, Josef / Thornley, Tracey / Holmes, Chris

    2022  

    Abstract: The UK COVID-19 Vocal Audio Dataset is designed for the training and evaluation of machine learning models that classify SARS-CoV-2 infection status or associated respiratory symptoms using vocal audio. The UK Health Security Agency recruited voluntary ... ...

    Abstract The UK COVID-19 Vocal Audio Dataset is designed for the training and evaluation of machine learning models that classify SARS-CoV-2 infection status or associated respiratory symptoms using vocal audio. The UK Health Security Agency recruited voluntary participants through the national Test and Trace programme and the REACT-1 survey in England from March 2021 to March 2022, during dominant transmission of the Alpha and Delta SARS-CoV-2 variants and some Omicron variant sublineages. Audio recordings of volitional coughs, exhalations, and speech were collected in the 'Speak up to help beat coronavirus' digital survey alongside demographic, self-reported symptom and respiratory condition data, and linked to SARS-CoV-2 test results. The UK COVID-19 Vocal Audio Dataset represents the largest collection of SARS-CoV-2 PCR-referenced audio recordings to date. PCR results were linked to 70,794 of 72,999 participants and 24,155 of 25,776 positive cases. Respiratory symptoms were reported by 45.62% of participants. This dataset has additional potential uses for bioacoustics research, with 11.30% participants reporting asthma, and 27.20% with linked influenza PCR test results.

    Comment: 39 pages, 4 figures
    Keywords Computer Science - Sound ; Computer Science - Machine Learning ; Electrical Engineering and Systems Science - Audio and Speech Processing
    Subject code 410
    Publishing date 2022-12-15
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  8. Article: Go local: The key to controlling the COVID-19 pandemic in the post lockdown era

    Bennett, Isabel / Budd, Jobie / Manning, Erin M. / Manley, Ed / Zhuang, Mengdie / Cox, Ingemar J. / Short, Michael / Johnson, Anne M. / Pillay, Deenan / McKendry, Rachel A.

    Abstract: The UK government announced its first wave of lockdown easing on 10 May 2020, two months after the non-pharmaceutical measures to reduce the spread of COVID-19 were first introduced on 23 March 2020. Analysis of reported case rate data from Public Health ...

    Abstract The UK government announced its first wave of lockdown easing on 10 May 2020, two months after the non-pharmaceutical measures to reduce the spread of COVID-19 were first introduced on 23 March 2020. Analysis of reported case rate data from Public Health England and aggregated and anonymised crowd level mobility data shows variability across local authorities in the UK. A locality-based approach to lockdown easing is needed, enabling local public health and associated health and social care services to rapidly respond to emerging hotspots of infection. National level data will hide an increasing heterogeneity of COVID-19 infections and mobility, and new ways of real-time data presentation to the public are required. Data sources (including mobile) allow for faster visualisation than more traditional data sources, and are part of a wider trend towards near real-time analysis of outbreaks needed for timely, targeted local public health interventions. Real time data visualisation may give early warnings of unusual levels of activity which warrant further investigation by local public health authorities.
    Keywords covid19
    Publisher ArXiv
    Document type Article
    Database COVID19

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  9. Book ; Online: Go local

    Bennett, Isabel / Budd, Jobie / Manning, Erin M. / Manley, Ed / Zhuang, Mengdie / Cox, Ingemar J. / Short, Michael / Johnson, Anne M. / Pillay, Deenan / McKendry, Rachel A.

    The key to controlling the COVID-19 pandemic in the post lockdown era

    2020  

    Abstract: The UK government announced its first wave of lockdown easing on 10 May 2020, two months after the non-pharmaceutical measures to reduce the spread of COVID-19 were first introduced on 23 March 2020. Analysis of reported case rate data from Public Health ...

    Abstract The UK government announced its first wave of lockdown easing on 10 May 2020, two months after the non-pharmaceutical measures to reduce the spread of COVID-19 were first introduced on 23 March 2020. Analysis of reported case rate data from Public Health England and aggregated and anonymised crowd level mobility data shows variability across local authorities in the UK. A locality-based approach to lockdown easing is needed, enabling local public health and associated health and social care services to rapidly respond to emerging hotspots of infection. National level data will hide an increasing heterogeneity of COVID-19 infections and mobility, and new ways of real-time data presentation to the public are required. Data sources (including mobile) allow for faster visualisation than more traditional data sources, and are part of a wider trend towards near real-time analysis of outbreaks needed for timely, targeted local public health interventions. Real time data visualisation may give early warnings of unusual levels of activity which warrant further investigation by local public health authorities.

    Comment: 6 pages, 3 figures
    Keywords Computer Science - Computers and Society ; covid19
    Subject code 306
    Publishing date 2020-07-06
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  10. Article: Digital technologies in the public-health response to COVID-19

    Budd, Jobie / Miller, Benjamin S / Manning, Erin M / Lampos, Vasileios / Zhuang, Mengdie / Edelstein, Michael / Rees, Geraint / Emery, Vincent C / Stevens, Molly M / Keegan, Neil / Short, Michael J / Pillay, Deenan / Manley, Ed / Cox, Ingemar J / Heymann, David / Johnson, Anne M / McKendry, Rachel A

    Nat Med

    Abstract: Digital technologies are being harnessed to support the public-health response to COVID-19 worldwide, including population surveillance, case identification, contact tracing and evaluation of interventions on the basis of mobility data and communication ... ...

    Abstract Digital technologies are being harnessed to support the public-health response to COVID-19 worldwide, including population surveillance, case identification, contact tracing and evaluation of interventions on the basis of mobility data and communication with the public. These rapid responses leverage billions of mobile phones, large online datasets, connected devices, relatively low-cost computing resources and advances in machine learning and natural language processing. This Review aims to capture the breadth of digital innovations for the public-health response to COVID-19 worldwide and their limitations, and barriers to their implementation, including legal, ethical and privacy barriers, as well as organizational and workforce barriers. The future of public health is likely to become increasingly digital, and we review the need for the alignment of international strategies for the regulation, evaluation and use of digital technologies to strengthen pandemic management, and future preparedness for COVID-19 and other infectious diseases.
    Keywords covid19
    Publisher WHO
    Document type Article
    Note WHO #Covidence: #704642
    Database COVID19

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