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Register a new userAudio feature ranking for sound-based COVID-19 patient detection
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Added by
Julia A. Meister
Publication date
2021
fields
Informatics Engineering
and research's language is
English
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Audio classification using breath and cough samples has recently emerged as a low-cost, non-invasive, and accessible COVID-19 screening method. However, no application has been approved for official use at the time of writing due to the stringent reliability and accuracy requirements of the critical healthcare setting. To support the development of the Machine Learning classification models, we performed an extensive comparative investigation and ranking of 15 audio features, including less well-known ones. The results were verified on two independent COVID-19 sound datasets. By using the identified top-performing features, we have increased the COVID-19 classification accuracy by up to 17% on the Cambridge dataset, and up to 10% on the Coswara dataset, compared to the original baseline accuracy without our feature ranking.
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Recently, sound-based COVID-19 detection studies have shown great promise to achieve scalable and prompt digital pre-screening. However, there are still two unsolved issues hindering the practice. First, collected datasets for model training are often imbalanced, with a considerably smaller proportion of users tested positive, making it harder to learn representative and robust features. Second, deep learning models are generally overconfident in their predictions. Clinically, false predictions aggravate healthcare costs. Estimation of the uncertainty of screening would aid this. To handle these issues, we propose an ensemble framework where multiple deep learning models for sound-based COVID-19 detection are developed from different but balanced subsets from original data. As such, data are utilized more effectively compared to traditional up-sampling and down-sampling approaches: an AUC of 0.74 with a sensitivity of 0.68 and a specificity of 0.69 is achieved. Simultaneously, we estimate uncertainty from the disagreement across multiple models. It is shown that false predictions often yield higher uncertainty, enabling us to suggest the users with certainty higher than a threshold to repeat the audio test on their phones or to take clinical tests if digital diagnosis still fails. This study paves the way for a more robust sound-based COVID-19 automated screening system.
Researchers have been battling with the question of how we can identify Coronavirus disease (COVID-19) cases efficiently, affordably and at scale. Recent work has shown how audio based approaches, which collect respiratory audio data (cough, breathing and voice) can be used for testing, however there is a lack of exploration of how biases and methodological decisions impact these tools performance in practice. In this paper, we explore the realistic performance of audio-based digital testing of COVID-19. To investigate this, we collected a large crowdsourced respiratory audio dataset through a mobile app, alongside recent COVID-19 test result and symptoms intended as a ground truth. Within the collected dataset, we selected 5,240 samples from 2,478 participants and split them into different participant-independent sets for model development and validation. Among these, we controlled for potential confounding factors (such as demographics and language). The unbiased model takes features extracted from breathing, coughs, and voice signals as predictors and yields an AUC-ROC of 0.71 (95% CI: 0.65$-$0.77). We further explore different unbalanced distributions to show how biases and participant splits affect performance. Finally, we discuss how the realistic model presented could be integrated in clinical practice to realize continuous, ubiquitous, sustainable and affordable testing at population scale.
Sound event detection is an important facet of audio tagging that aims to identify sounds of interest and define both the sound category and time boundaries for each sound event in a continuous recording. With advances in deep neural networks, there has been tremendous improvement in the performance of sound event detection systems, although at the expense of costly data collection and labeling efforts. In fact, current state-of-the-art methods employ supervised training methods that leverage large amounts of data samples and corresponding labels in order to facilitate identification of sound category and time stamps of events. As an alternative, the current study proposes a semi-supervised method for generating pseudo-labels from unsupervised data using a student-teacher scheme that balances self-training and cross-training. Additionally, this paper explores post-processing which extracts sound intervals from network prediction, for further improvement in sound event detection performance. The proposed approach is evaluated on sound event detection task for the DCASE2020 challenge. The results of these methods on both validation and public evaluation sets of DESED database show significant improvement compared to the state-of-the art systems in semi-supervised learning.
Audio signals generated by the human body (e.g., sighs, breathing, heart, digestion, vibration sounds) have routinely been used by clinicians as indicators to diagnose disease or assess disease progression. Until recently, such signals were usually collected through manual auscultation at scheduled visits. Research has now started to use digital technology to gather bodily sounds (e.g., from digital stethoscopes) for cardiovascular or respiratory examination, which could then be used for automatic analysis. Some initial work shows promise in detecting diagnostic signals of COVID-19 from voice and coughs. In this paper we describe our data analysis over a large-scale crowdsourced dataset of respiratory sounds collected to aid diagnosis of COVID-19. We use coughs and breathing to understand how discernible COVID-19 sounds are from those in asthma or healthy controls. Our results show that even a simple binary machine learning classifier is able to classify correctly healthy and COVID-19 sounds. We also show how we distinguish a user who tested positive for COVID-19 and has a cough from a healthy user with a cough, and users who tested positive for COVID-19 and have a cough from users with asthma and a cough. Our models achieve an AUC of above 80% across all tasks. These results are preliminary and only scratch the surface of the potential of this type of data and audio-based machine learning. This work opens the door to further investigation of how automatically analysed respiratory patterns could be used as pre-screening signals to aid COVID-19 diagnosis.
In this paper, a special decision surface for the weakly-supervised sound event detection (SED) and a disentangled feature (DF) for the multi-label problem in polyphonic SED are proposed. We approach SED as a multiple instance learning (MIL) problem and utilize a neural network framework with a pooling module to solve it. General MIL approaches include two kinds: the instance-level approaches and embedding-level approaches. We present a method of generating instance-level probabilities for the embedding level approaches which tend to perform better than the instance-level approaches in terms of bag-level classification but can not provide instance-level probabilities in current approaches. Moreover, we further propose a specialized decision surface (SDS) for the embedding-level attention pooling. We analyze and explained why an embedding-level attention module with SDS is better than other typical pooling modules from the perspective of the high-level feature space. As for the problem of the unbalanced dataset and the co-occurrence of multiple categories in the polyphonic event detection task, we propose a DF to reduce interference among categories, which optimizes the high-level feature space by disentangling it based on class-wise identifiable information and obtaining multiple different subspaces. Experiments on the dataset of DCASE 2018 Task 4 show that the proposed SDS and DF significantly improve the detection performance of the embedding-level MIL approach with an attention pooling module and outperform the first place system in the challenge by 6.6 percentage points.
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