Reducing the shortage of organ donations to meet the demands of patients on the waiting list has being a major challenge in organ transplantation. Because of the shortage, organ matching decision is the most critical decision to assign the limited viable organs to the most “suitable” patients. Currently, organ matching decisions are only made by matching scores calculated via scoring models, which are built by the first principles. However, these models may disagree with the actual post-transplantation matching performance (e.g., patient's post-transplant quality of life (QoL) or graft failure measurements). In this paper, we formulate the organ matching decision-making as a top-N recommendation problem and propose an Adaptively Weighted Top-N Recommendation (AWTR) method. AWTR improves performance of the current scoring models by using limited actual matching performance in historical datasets as well as the collected covariates from organ donors and patients. AWTR sacrifices the overall recommendation accuracy by emphasizing the recommendation and ranking accuracy for top-N matched patients. The proposed method is validated in a simulation study, where KAS [60] is used to simulate the organ-patient recommendation response. The results show that our proposed method outperforms seven state-of-the-art top-N recommendation benchmark methods.
{"title":"Adaptively Weighted Top-N Recommendation for Organ Matching","authors":"Parshin Shojaee, Xiaoyu Chen, R. Jin","doi":"10.1145/3469657","DOIUrl":"https://doi.org/10.1145/3469657","url":null,"abstract":"Reducing the shortage of organ donations to meet the demands of patients on the waiting list has being a major challenge in organ transplantation. Because of the shortage, organ matching decision is the most critical decision to assign the limited viable organs to the most “suitable” patients. Currently, organ matching decisions are only made by matching scores calculated via scoring models, which are built by the first principles. However, these models may disagree with the actual post-transplantation matching performance (e.g., patient's post-transplant quality of life (QoL) or graft failure measurements). In this paper, we formulate the organ matching decision-making as a top-N recommendation problem and propose an Adaptively Weighted Top-N Recommendation (AWTR) method. AWTR improves performance of the current scoring models by using limited actual matching performance in historical datasets as well as the collected covariates from organ donors and patients. AWTR sacrifices the overall recommendation accuracy by emphasizing the recommendation and ranking accuracy for top-N matched patients. The proposed method is validated in a simulation study, where KAS [60] is used to simulate the organ-patient recommendation response. The results show that our proposed method outperforms seven state-of-the-art top-N recommendation benchmark methods.","PeriodicalId":288903,"journal":{"name":"ACM Transactions on Computing for Healthcare (HEALTH)","volume":"70 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-07-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"127277747","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Soha Rostaminia, S. Z. Homayounfar, A. Kiaghadi, Trisha L. Andrew, Deepak Ganesan
Clinical-grade wearable sleep monitoring is a challenging problem since it requires concurrently monitoring brain activity, eye movement, muscle activity, cardio-respiratory features, and gross body movements. This requires multiple sensors to be worn at different locations as well as uncomfortable adhesives and discrete electronic components to be placed on the head. As a result, existing wearables either compromise comfort or compromise accuracy in tracking sleep variables. We propose PhyMask, an all-textile sleep monitoring solution that is practical and comfortable for continuous use and that acquires all signals of interest to sleep solely using comfortable textile sensors placed on the head. We show that PhyMask can be used to accurately measure all the signals required for precise sleep stage tracking and to extract advanced sleep markers such as spindles and K-complexes robustly in the real-world setting. We validate PhyMask against polysomnography (PSG) and show that it significantly outperforms two commercially-available sleep tracking wearables—Fitbit and Oura Ring.
{"title":"PhyMask: Robust Sensing of Brain Activity and Physiological Signals During Sleep with an All-textile Eye Mask","authors":"Soha Rostaminia, S. Z. Homayounfar, A. Kiaghadi, Trisha L. Andrew, Deepak Ganesan","doi":"10.1145/3513023","DOIUrl":"https://doi.org/10.1145/3513023","url":null,"abstract":"Clinical-grade wearable sleep monitoring is a challenging problem since it requires concurrently monitoring brain activity, eye movement, muscle activity, cardio-respiratory features, and gross body movements. This requires multiple sensors to be worn at different locations as well as uncomfortable adhesives and discrete electronic components to be placed on the head. As a result, existing wearables either compromise comfort or compromise accuracy in tracking sleep variables. We propose PhyMask, an all-textile sleep monitoring solution that is practical and comfortable for continuous use and that acquires all signals of interest to sleep solely using comfortable textile sensors placed on the head. We show that PhyMask can be used to accurately measure all the signals required for precise sleep stage tracking and to extract advanced sleep markers such as spindles and K-complexes robustly in the real-world setting. We validate PhyMask against polysomnography (PSG) and show that it significantly outperforms two commercially-available sleep tracking wearables—Fitbit and Oura Ring.","PeriodicalId":288903,"journal":{"name":"ACM Transactions on Computing for Healthcare (HEALTH)","volume":"40 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-06-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"126331638","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Yu Gu, Robert Tinn, Hao Cheng, Michael R. Lucas, Naoto Usuyama, Xiaodong Liu, Tristan Naumann, Jianfeng Gao, Hoifung Poon
Pretraining large neural language models, such as BERT, has led to impressive gains on many natural language processing (NLP) tasks. However, most pretraining efforts focus on general domain corpora, such as newswire and Web. A prevailing assumption is that even domain-specific pretraining can benefit by starting from general-domain language models. In this article, we challenge this assumption by showing that for domains with abundant unlabeled text, such as biomedicine, pretraining language models from scratch results in substantial gains over continual pretraining of general-domain language models. To facilitate this investigation, we compile a comprehensive biomedical NLP benchmark from publicly available datasets. Our experiments show that domain-specific pretraining serves as a solid foundation for a wide range of biomedical NLP tasks, leading to new state-of-the-art results across the board. Further, in conducting a thorough evaluation of modeling choices, both for pretraining and task-specific fine-tuning, we discover that some common practices are unnecessary with BERT models, such as using complex tagging schemes in named entity recognition. To help accelerate research in biomedical NLP, we have released our state-of-the-art pretrained and task-specific models for the community, and created a leaderboard featuring our BLURB benchmark (short for Biomedical Language Understanding & Reasoning Benchmark) at https://aka.ms/BLURB.
{"title":"Domain-Specific Language Model Pretraining for Biomedical Natural Language Processing","authors":"Yu Gu, Robert Tinn, Hao Cheng, Michael R. Lucas, Naoto Usuyama, Xiaodong Liu, Tristan Naumann, Jianfeng Gao, Hoifung Poon","doi":"10.1145/3458754","DOIUrl":"https://doi.org/10.1145/3458754","url":null,"abstract":"Pretraining large neural language models, such as BERT, has led to impressive gains on many natural language processing (NLP) tasks. However, most pretraining efforts focus on general domain corpora, such as newswire and Web. A prevailing assumption is that even domain-specific pretraining can benefit by starting from general-domain language models. In this article, we challenge this assumption by showing that for domains with abundant unlabeled text, such as biomedicine, pretraining language models from scratch results in substantial gains over continual pretraining of general-domain language models. To facilitate this investigation, we compile a comprehensive biomedical NLP benchmark from publicly available datasets. Our experiments show that domain-specific pretraining serves as a solid foundation for a wide range of biomedical NLP tasks, leading to new state-of-the-art results across the board. Further, in conducting a thorough evaluation of modeling choices, both for pretraining and task-specific fine-tuning, we discover that some common practices are unnecessary with BERT models, such as using complex tagging schemes in named entity recognition. To help accelerate research in biomedical NLP, we have released our state-of-the-art pretrained and task-specific models for the community, and created a leaderboard featuring our BLURB benchmark (short for Biomedical Language Understanding & Reasoning Benchmark) at https://aka.ms/BLURB.","PeriodicalId":288903,"journal":{"name":"ACM Transactions on Computing for Healthcare (HEALTH)","volume":"26 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2020-07-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"121608612","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
D. Slijepcevic, Fabian Horst, S. Lapuschkin, B. Horsak, Anna-Maria Raberger, A. Kranzl, W. Samek, C. Breiteneder, W. Schöllhorn, M. Zeppelzauer
Machine Learning (ML) is increasingly used to support decision-making in the healthcare sector. While ML approaches provide promising results with regard to their classification performance, most share a central limitation, their black-box character. This article investigates the usefulness of Explainable Artificial Intelligence (XAI) methods to increase transparency in automated clinical gait classification based on time series. For this purpose, predictions of state-of-the-art classification methods are explained with a XAI method called Layer-wise Relevance Propagation (LRP). Our main contribution is an approach that explains class-specific characteristics learned by ML models that are trained for gait classification. We investigate several gait classification tasks and employ different classification methods, i.e., Convolutional Neural Network, Support Vector Machine, and Multi-layer Perceptron. We propose to evaluate the obtained explanations with two complementary approaches: a statistical analysis of the underlying data using Statistical Parametric Mapping and a qualitative evaluation by two clinical experts. A gait dataset comprising ground reaction force measurements from 132 patients with different lower-body gait disorders and 62 healthy controls is utilized. Our experiments show that explanations obtained by LRP exhibit promising statistical properties concerning inter-class discriminativity and are also in line with clinically relevant biomechanical gait characteristics.
{"title":"Explaining Machine Learning Models for Clinical Gait Analysis","authors":"D. Slijepcevic, Fabian Horst, S. Lapuschkin, B. Horsak, Anna-Maria Raberger, A. Kranzl, W. Samek, C. Breiteneder, W. Schöllhorn, M. Zeppelzauer","doi":"10.1145/3474121","DOIUrl":"https://doi.org/10.1145/3474121","url":null,"abstract":"Machine Learning (ML) is increasingly used to support decision-making in the healthcare sector. While ML approaches provide promising results with regard to their classification performance, most share a central limitation, their black-box character. This article investigates the usefulness of Explainable Artificial Intelligence (XAI) methods to increase transparency in automated clinical gait classification based on time series. For this purpose, predictions of state-of-the-art classification methods are explained with a XAI method called Layer-wise Relevance Propagation (LRP). Our main contribution is an approach that explains class-specific characteristics learned by ML models that are trained for gait classification. We investigate several gait classification tasks and employ different classification methods, i.e., Convolutional Neural Network, Support Vector Machine, and Multi-layer Perceptron. We propose to evaluate the obtained explanations with two complementary approaches: a statistical analysis of the underlying data using Statistical Parametric Mapping and a qualitative evaluation by two clinical experts. A gait dataset comprising ground reaction force measurements from 132 patients with different lower-body gait disorders and 62 healthy controls is utilized. Our experiments show that explanations obtained by LRP exhibit promising statistical properties concerning inter-class discriminativity and are also in line with clinically relevant biomechanical gait characteristics.","PeriodicalId":288903,"journal":{"name":"ACM Transactions on Computing for Healthcare (HEALTH)","volume":"19 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2019-12-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"125613959","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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