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Lee MP, Hoang K, Park S, Song YM, Joo EY, Chang W, Kim JH, Kim JK. Imputing missing sleep data from wearables with neural networks in real-world settings. Sleep 2024; 47:zsad266. [PMID: 37819273 DOI: 10.1093/sleep/zsad266] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Revised: 09/12/2023] [Indexed: 10/13/2023] Open
Abstract
Sleep is a critical component of health and well-being but collecting and analyzing accurate longitudinal sleep data can be challenging, especially outside of laboratory settings. We propose a simple neural network model titled SOMNI (Sleep data restOration using Machine learning and Non-negative matrix factorIzation [NMF]) for imputing missing rest-activity data from actigraphy, which can enable clinicians to better handle missing data and monitor sleep-wake cycles of individuals with highly irregular sleep-wake patterns. The model consists of two hidden layers and uses NMF to capture hidden longitudinal sleep-wake patterns of individuals with disturbed sleep-wake cycles. Based on this, we develop two approaches: the individual approach imputes missing data based on the data from only one participant, while the global approach imputes missing data based on the data across multiple participants. Our models are tested with shift and non-shift workers' data from three independent hospitals. Both approaches can accurately impute missing data up to 24 hours of long dataset (>50 days) even for shift workers with extremely irregular sleep-wake patterns (AUC > 0.86). On the other hand, for short dataset (~15 days), only the global model is accurate (AUC > 0.77). Our approach can be used to help clinicians monitor sleep-wake cycles of patients with sleep disorders outside of laboratory settings without relying on sleep diaries, ultimately improving sleep health outcomes.
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Affiliation(s)
- Minki P Lee
- Department of Mathematics, University of Michigan, Ann Arbor, MI, USA
| | - Kien Hoang
- Institute of Mathematics, EPFL, Lausanne, Switzerland
| | - Sungkyu Park
- Department of Artificial Intelligence Convergence, Kangwon National University, Chuncheon, Republic of Korea
| | - Yun Min Song
- Department of Mathematical Sciences, KAIST, Daejeon, Republic of Korea
- Biomedical Mathematics Group, Institute for Basic Science, Daejeon, Republic of Korea
| | - Eun Yeon Joo
- Department of Neurology, Neuroscience Center, Samsung Biomedical Research Institute, Samsung Medical Center, Sungkyunkwan University School of Medicine, Seoul, Republic of Korea
| | - Won Chang
- Department of Mathematical Sciences, University of Cincinnati, Cincinnati, OH, USA
| | - Jee Hyun Kim
- Department of Neurology, Ewha Womans University Seoul Hospital, Ewha Womans University College of Medicine, Seoul, Republic of Korea
| | - Jae Kyoung Kim
- Department of Mathematical Sciences, KAIST, Daejeon, Republic of Korea
- Biomedical Mathematics Group, Institute for Basic Science, Daejeon, Republic of Korea
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2
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Hasasneh A, Hijazi H, Talib MA, Afadar Y, Nassif AB, Nasir Q. Wearable Devices and Explainable Unsupervised Learning for COVID-19 Detection and Monitoring. Diagnostics (Basel) 2023; 13:3071. [PMID: 37835814 PMCID: PMC10572947 DOI: 10.3390/diagnostics13193071] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2023] [Revised: 09/20/2023] [Accepted: 09/22/2023] [Indexed: 10/15/2023] Open
Abstract
Despite the declining COVID-19 cases, global healthcare systems still face significant challenges due to ongoing infections, especially among fully vaccinated individuals, including adolescents and young adults (AYA). To tackle this issue, cost-effective alternatives utilizing technologies like Artificial Intelligence (AI) and wearable devices have emerged for disease screening, diagnosis, and monitoring. However, many AI solutions in this context heavily rely on supervised learning techniques, which pose challenges such as human labeling reliability and time-consuming data annotation. In this study, we propose an innovative unsupervised framework that leverages smartwatch data to detect and monitor COVID-19 infections. We utilize longitudinal data, including heart rate (HR), heart rate variability (HRV), and physical activity measured via step count, collected through the continuous monitoring of volunteers. Our goal is to offer effective and affordable solutions for COVID-19 detection and monitoring. Our unsupervised framework employs interpretable clusters of normal and abnormal measures, facilitating disease progression detection. Additionally, we enhance result interpretation by leveraging the language model Davinci GPT-3 to gain deeper insights into the underlying data patterns and relationships. Our results demonstrate the effectiveness of unsupervised learning, achieving a Silhouette score of 0.55. Furthermore, validation using supervised learning techniques yields high accuracy (0.884 ± 0.005), precision (0.80 ± 0.112), and recall (0.817 ± 0.037). These promising findings indicate the potential of unsupervised techniques for identifying inflammatory markers, contributing to the development of efficient and reliable COVID-19 detection and monitoring methods. Our study shows the capabilities of AI and wearables, reflecting the pursuit of low-cost, accessible solutions for addressing health challenges related to inflammatory diseases, thereby opening new avenues for scalable and widely applicable health monitoring solutions.
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Affiliation(s)
- Ahmad Hasasneh
- Department of Natural, Engineering, and Technology Sciences, Faculty of Graduate Studies, Arab American University, Ramallah P-600-699, Palestine;
| | - Haytham Hijazi
- Department of Informatics Engineering, CISUC-Centre for Informatics and Systems of the University of Coimbra, University of Coimbra, 3030-790 Coimbra, Portugal
- Intelligent Systems Department, Palestine Ahliya University, Bethlehem P-150-199, Palestine
| | - Manar Abu Talib
- College of Computing and Informatics, University of Sharjah, Sharjah 27272, United Arab Emirates; (M.A.T.); (Y.A.); (A.B.N.); (Q.N.)
| | - Yaman Afadar
- College of Computing and Informatics, University of Sharjah, Sharjah 27272, United Arab Emirates; (M.A.T.); (Y.A.); (A.B.N.); (Q.N.)
| | - Ali Bou Nassif
- College of Computing and Informatics, University of Sharjah, Sharjah 27272, United Arab Emirates; (M.A.T.); (Y.A.); (A.B.N.); (Q.N.)
| | - Qassim Nasir
- College of Computing and Informatics, University of Sharjah, Sharjah 27272, United Arab Emirates; (M.A.T.); (Y.A.); (A.B.N.); (Q.N.)
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Ghomrawi HMK, O'Brien MK, Carter M, Macaluso R, Khazanchi R, Fanton M, DeBoer C, Linton SC, Zeineddin S, Pitt JB, Bouchard M, Figueroa A, Kwon S, Holl JL, Jayaraman A, Abdullah F. Applying machine learning to consumer wearable data for the early detection of complications after pediatric appendectomy. NPJ Digit Med 2023; 6:148. [PMID: 37587211 PMCID: PMC10432429 DOI: 10.1038/s41746-023-00890-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2022] [Accepted: 08/01/2023] [Indexed: 08/18/2023] Open
Abstract
When children are discharged from the hospital after surgery, their caregivers often rely on subjective assessments (e.g., appetite, fatigue) to monitor postoperative recovery as objective assessment tools are scarce at home. Such imprecise and one-dimensional evaluations can result in unwarranted emergency department visits or delayed care. To address this gap in postoperative monitoring, we evaluated the ability of a consumer-grade wearable device, Fitbit, which records multimodal data about daily physical activity, heart rate, and sleep, in detecting abnormal recovery early in children recovering after appendectomy. One hundred and sixty-two children, ages 3-17 years old, who underwent an appendectomy (86 complicated and 76 simple cases of appendicitis) wore a Fitbit device on their wrist for 21 days postoperatively. Abnormal recovery events (i.e., abnormal symptoms or confirmed postoperative complications) that arose during this period were gathered from medical records and patient reports. Fitbit-derived measures, as well as demographic and clinical characteristics, were used to train machine learning models to retrospectively detect abnormal recovery in the two days leading up to the event for patients with complicated and simple appendicitis. A balanced random forest classifier accurately detected 83% of these abnormal recovery days in complicated appendicitis and 70% of abnormal recovery days in simple appendicitis prior to the true report of a symptom/complication. These results support the development of machine learning algorithms to predict onset of abnormal symptoms and complications in children undergoing surgery, and the use of consumer wearables as monitoring tools for early detection of postoperative events.
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Affiliation(s)
- Hassan M K Ghomrawi
- Department of Surgery, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Department of Pediatrics, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Center for Health Services and Outcomes Research, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Center for Global Surgery, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Department of Medicine (Rheumatology), Northwestern University Feinberg School of Medicine, Chicago, IL, USA
| | | | - Michela Carter
- Department of Surgery, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Division of Pediatric Surgery, Ann and Robert H. Lurie Children's Hospital of Chicago, Chicago, IL, USA
| | | | - Rushmin Khazanchi
- Shirley Ryan AbilityLab, Chicago, IL, USA
- Northwestern University Feinberg School of Medicine, Chicago, IL, USA
| | | | - Christopher DeBoer
- Department of Surgery, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Division of Pediatric Surgery, Ann and Robert H. Lurie Children's Hospital of Chicago, Chicago, IL, USA
| | - Samuel C Linton
- Department of Surgery, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Division of Pediatric Surgery, Ann and Robert H. Lurie Children's Hospital of Chicago, Chicago, IL, USA
| | - Suhail Zeineddin
- Department of Surgery, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Division of Pediatric Surgery, Ann and Robert H. Lurie Children's Hospital of Chicago, Chicago, IL, USA
| | - J Benjamin Pitt
- Department of Surgery, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Division of Pediatric Surgery, Ann and Robert H. Lurie Children's Hospital of Chicago, Chicago, IL, USA
| | - Megan Bouchard
- Department of Surgery, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Division of Pediatric Surgery, Ann and Robert H. Lurie Children's Hospital of Chicago, Chicago, IL, USA
| | - Angie Figueroa
- Division of Pediatric Surgery, Ann and Robert H. Lurie Children's Hospital of Chicago, Chicago, IL, USA
| | - Soyang Kwon
- Department of Pediatrics, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Department of Pediatrics, Ann and Robert H. Lurie Children's Hospital of Chicago, Chicago, IL, USA
| | - Jane L Holl
- Department of Neurology and Center for Healthcare Delivery Science and Innovation, Biological Sciences Division, University of Chicago, Chicago, IL, USA
| | - Arun Jayaraman
- Shirley Ryan AbilityLab, Chicago, IL, USA
- Department of Physical Medicine and Rehabilitation, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Department of Medical Social Sciences, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
- Department of Physical Therapy and Human Movement Sciences, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
| | - Fizan Abdullah
- Department of Surgery, Northwestern University Feinberg School of Medicine, Chicago, IL, USA.
- Center for Global Surgery, Northwestern University Feinberg School of Medicine, Chicago, IL, USA.
- Division of Pediatric Surgery, Ann and Robert H. Lurie Children's Hospital of Chicago, 225 East Chicago Avenue, Box 63, Chicago, IL, 60611, USA.
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Kim DW, Mayer C, Lee MP, Choi SW, Tewari M, Forger DB. Efficient assessment of real-world dynamics of circadian rhythms in heart rate and body temperature from wearable data. J R Soc Interface 2023; 20:20230030. [PMID: 37608712 PMCID: PMC10445022 DOI: 10.1098/rsif.2023.0030] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2023] [Accepted: 07/31/2023] [Indexed: 08/24/2023] Open
Abstract
Laboratory studies have made unprecedented progress in understanding circadian physiology. Quantifying circadian rhythms outside of laboratory settings is necessary to translate these findings into real-world clinical practice. Wearables have been considered promising way to measure these rhythms. However, their limited validation remains an open problem. One major barrier to implementing large-scale validation studies is the lack of reliable and efficient methods for circadian assessment from wearable data. Here, we propose an approximation-based least-squares method to extract underlying circadian rhythms from wearable measurements. Its computational cost is ∼ 300-fold lower than that of previous work, enabling its implementation in smartphones with low computing power. We test it on two large-scale real-world wearable datasets: [Formula: see text] of body temperature data from cancer patients and ∼ 184 000 days of heart rate and activity data collected from the 'Social Rhythms' mobile application. This shows successful extraction of real-world dynamics of circadian rhythms. We also identify a reasonable harmonic model to analyse wearable data. Lastly, we show our method has broad applicability in circadian studies by embedding it into a Kalman filter that infers the state space of the molecular clocks in tissues. Our approach facilitates the translation of scientific advances in circadian fields into actual improvements in health.
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Affiliation(s)
- Dae Wook Kim
- Department of Mathematics, University of Michigan, Ann Arbor, MI 48109, USA
| | - Caleb Mayer
- Department of Mathematics, University of Michigan, Ann Arbor, MI 48109, USA
| | - Minki P. Lee
- Department of Mathematics, University of Michigan, Ann Arbor, MI 48109, USA
| | - Sung Won Choi
- Division of Pediatric Hematology/Oncology, Department of Pediatrics, University of Michigan, Ann Arbor, MI 48109, USA
- Rogel Comprehensive Cancer Center, University of Michigan, Ann Arbor, MI 48109, USA
| | - Muneesh Tewari
- Rogel Comprehensive Cancer Center, University of Michigan, Ann Arbor, MI 48109, USA
- Division of Hematology and Oncology, Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA
- Department of Biomedical Engineering, University of Michigan, Ann Arbor, MI 48109, USA
- Center for Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA
| | - Daniel B. Forger
- Department of Mathematics, University of Michigan, Ann Arbor, MI 48109, USA
- Center for Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA
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Sarwar A, Agu EO, Almadani A. CovidRhythm: A Deep Learning Model for Passive Prediction of Covid-19 Using Biobehavioral Rhythms Derived From Wearable Physiological Data. IEEE OPEN JOURNAL OF ENGINEERING IN MEDICINE AND BIOLOGY 2023; 4:21-30. [PMID: 37143920 PMCID: PMC10154002 DOI: 10.1109/ojemb.2023.3261223] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2023] [Revised: 03/08/2023] [Accepted: 03/17/2023] [Indexed: 05/06/2023] Open
Abstract
Goal: To investigate whether a deep learning model can detect Covid-19 from disruptions in the human body's physiological (heart rate) and rest-activity rhythms (rhythmic dysregulation) caused by the SARS-CoV-2 virus. Methods: We propose CovidRhythm, a novel Gated Recurrent Unit (GRU) Network with Multi-Head Self-Attention (MHSA) that combines sensor and rhythmic features extracted from heart rate and activity (steps) data gathered passively using consumer-grade smart wearable to predict Covid-19. A total of 39 features were extracted (standard deviation, mean, min/max/avg length of sedentary and active bouts) from wearable sensor data. Biobehavioral rhythms were modeled using nine parameters (mesor, amplitude, acrophase, and intra-daily variability). These features were then input to CovidRhythm for predicting Covid-19 in the incubation phase (one day before biological symptoms manifest). Results: A combination of sensor and biobehavioral rhythm features achieved the highest AUC-ROC of 0.79 [Sensitivity = 0.69, Specificity = 0.89, F[Formula: see text] = 0.76], outperforming prior approaches in discriminating Covid-positive patients from healthy controls using 24 hours of historical wearable physiological. Rhythmic features were the most predictive of Covid-19 infection when utilized either alone or in conjunction with sensor features. Sensor features predicted healthy subjects best. Circadian rest-activity rhythms that combine 24 h activity and sleep information were the most disrupted. Conclusions: CovidRhythm demonstrates that biobehavioral rhythms derived from consumer-grade wearable data can facilitate timely Covid-19 detection. To the best of our knowledge, our work is the first to detect Covid-19 using deep learning and biobehavioral rhythms features derived from consumer-grade wearable data.
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Affiliation(s)
- Atifa Sarwar
- Worcester Polytechnic Institute Worcester MA 01609 USA
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6
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Moškon M, Režen T, Juvančič M, Verovšek Š. Integrative Analysis of Rhythmicity: From Biology to Urban Environments and Sustainability. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2022; 20:764. [PMID: 36613088 PMCID: PMC9819461 DOI: 10.3390/ijerph20010764] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/30/2022] [Revised: 12/27/2022] [Accepted: 12/27/2022] [Indexed: 06/17/2023]
Abstract
From biological to socio-technical systems, rhythmic processes are pervasive in our environment. However, methods for their comprehensive analysis are prevalent only in specific fields that limit the transfer of knowledge across scientific disciplines. This hinders interdisciplinary research and integrative analyses of rhythms across different domains and datasets. In this paper, we review recent developments in cross-disciplinary rhythmicity research, with a focus on the importance of rhythmic analyses in urban planning and biomedical research. Furthermore, we describe the current state of the art of (integrative) computational methods for the investigation of rhythmic data. Finally, we discuss the further potential and propose necessary future developments for cross-disciplinary rhythmicity analysis to foster integration of heterogeneous datasets across different domains, as well as guide data-driven decision making beyond the boundaries of traditional intradisciplinary research, especially in the context of sustainable and healthy cities.
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Affiliation(s)
- Miha Moškon
- Faculty of Computer and Information Science, University of Ljubljana, 1000 Ljubljana, Slovenia
| | - Tadeja Režen
- Centre for Functional Genomics and Bio-Chips, Institute for Biochemistry and Molecular Genetics, Faculty of Medicine, University of Ljubljana, 1000 Ljubljana, Slovenia
| | - Matevž Juvančič
- Faculty of Architecture, University of Ljubljana, 1000 Ljubljana, Slovenia
| | - Špela Verovšek
- Faculty of Architecture, University of Ljubljana, 1000 Ljubljana, Slovenia
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