Accurate identification of respiratory viruses (RVs) is critical for outbreak control and public health. This study presents a diagnostic system that combines Attenuated Total Reflectance Fourier Transform Infrared Spectroscopy (ATR-FTIR) from nasopharyngeal secretions with an explainable Rotary Position Embedding-Sparse Attention Transformer (RoPE-SAT) model to accurately identify multiple RVs within 10 minutes. Spectral data (4000-00 cm-1) were collected, and the bio-fingerprint region (1800-900 cm-1) was employed for analysis. Standard normal variate (SNV) normalization and second-order derivation were applied to reduce scattering and baseline drift. Gradient-weighted class activation mapping (Grad-CAM) was employed to generate saliency maps, highlighting spectral regions most relevant to classification and enhancing the interpretability of model outputs. Two independent cohorts from Beijing Youan Hospital, processed with different viral transport media (VTMs) and drying methods, were evaluated, with one including influenza B, SARS-CoV-2, and healthy controls, and the other including mycoplasma, SARS-CoV-2, and healthy controls. The model achieved sensitivity and specificity above 94.40% across both cohorts. By correlating model-selected infrared regions with known biomolecular signatures, we verified that the system effectively recognizes virus-specific spectral fingerprints, including lipids, Amide I, Amide II, Amide III, nucleic acids, and carbohydrates, and leverages their weighted contributions for accurate classification.

During the early stages of respiratory virus outbreaks, such as severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the efficient utilize of limited nasopharyngeal swabs for rapid and accurate screening is crucial for public health. In this study, we present a methodology that integrates attenuated total reflection-Fourier transform infrared spectroscopy (ATR-FTIR) with the adaptive iteratively reweighted penalized least squares (airPLS) preprocessing algorithm and a channel-wise attention-based partial least squares one-dimensional convolutional neural network (PLS-1D-CNN) model, enabling accurate screening of infected individuals within 10 minutes. Two cohorts of nasopharyngeal swab samples, comprising 126 and 112 samples from suspected SARS-CoV-2 Omicron variant cases, were collected at Beijing You'an Hospital for verification. Given that ATR-FTIR spectra are highly sensitive to variations in experimental conditions, which can affect their quality, we propose a biomolecular importance (BMI) evaluation method to assess signal quality across different conditions, validated by comparing BMI with PLS-GBM and PLS-RF results. For the ATR-FTIR signals in cohort 2, which exhibited a higher BMI, airPLS was utilized for signal preprocessing, followed by the application of the channel-wise attention-based PLS-1D-CNN model for screening. The experimental results demonstrate that our model outperforms recently reported methods in the field of respiratory virus spectrum detection, achieving a recognition screening accuracy of 96.48%, a sensitivity of 96.24%, a specificity of 97.14%, an F1-score of 96.12%, and an AUC of 0.99. It meets the World Health Organization (WHO) recommended criteria for an acceptable product: sensitivity of 95.00% or greater and specificity of 97.00% or greater for testing prior SARS-CoV-2 infection in moderate to high volume scenarios.

Abstract--Geometric deep learning has sparked a rising interest in computer graphics to perform shape understanding tasks, such as shape classification and semantic segmentation. When the input is a polygonal surface, one has to suffer from the irregular mesh structure. Motivated by the geometric spectral theory, we introduce Laplacian2Mesh, a novel and flexible convolutional neural network (CNN) framework for coping with irregular triangle meshes (vertices may have any valence). By mapping the input mesh surface to the multi-dimensional Laplacian-Beltrami space, Laplacian2Mesh enables one to perform shape analysis tasks directly using the mature CNNs, without the need to deal with the irregular connectivity of the mesh structure. We further define a mesh pooling operation such that the receptive field of the network can be expanded while retaining the original vertex set as well as the connections between them. Besides, we introduce a channel-wise self-attention block to learn the individual importance of feature ingredients. Laplacian2Mesh not only decouples the geometry from the irregular connectivity of the mesh structure but also better captures the global features that are central to shape classification and segmentation. Extensive tests on various datasets demonstrate the effectiveness and efficiency of Laplacian2Mesh, particularly in terms of the capability of being vulnerable to noise to fulfill various learning tasks. A large number of deep neural are proposed to define convolution kernels on the parameterization networks have been designed to deal with 3D shapes of various plane for each local surface patch.

This paper presents a systematic study of the effects of hyperspectral pixel dimensionality reduction on the pixel classification task. We use five dimensionality reduction methods -- PCA, KPCA, ICA, AE, and DAE -- to compress 301-dimensional hyperspectral pixels. Compressed pixels are subsequently used to perform pixel classifications. Pixel classification accuracies together with compression method, compression rates, and reconstruction errors provide a new lens to study the suitability of a compression method for the task of pixel classification. We use three high-resolution hyperspectral image datasets, representing three common landscape types (i.e. urban, transitional suburban, and forests) collected by the Remote Sensing and Spatial Ecosystem Modeling laboratory of the University of Toronto. We found that PCA, KPCA, and ICA post greater signal reconstruction capability; however, when compression rates are more than 90\% these methods show lower classification scores. AE and DAE methods post better classification accuracy at 95\% compression rate, however their performance drops as compression rate approaches 97\%. Our results suggest that both the compression method and the compression rate are important considerations when designing a hyperspectral pixel classification pipeline.

This work proposes a spectral convolutional neural network (CNN) operating on laser induced breakdown spectroscopy (LIBS) signals to learn to (1) disentangle spectral signals from the sources of sensor uncertainty (i.e., pre-process) and (2) get qualitative and quantitative measures of chemical content of a sample given a spectral signal (i.e., calibrate). Once the spectral CNN is trained, it can accomplish either task through a single feed-forward pass, with real-time benefits and without any additional side information requirements including dark current, system response, temperature and detector-to-target range. Our experiments demonstrate that the proposed method outperforms the existing approaches used by the Mars Science Lab for pre-processing and calibration for remote sensing observations from the Mars rover, 'Curiosity'.

Detecting and mapping informal settlements encompasses several of the United Nations sustainable development goals. This is because informal settlements are home to the most socially and economically vulnerable people on the planet. Thus, understanding where these settlements are is of paramount importance to both government and non-government organizations (NGOs), such as the United Nations Children's Fund (UNICEF), who can use this information to deliver effective social and economic aid. We propose a method that detects and maps the locations of informal settlements using only freely available, Sentinel-2 low-resolution satellite spectral data and socio-economic data. This is in contrast to previous studies that only use costly very-high resolution (VHR) satellite and aerial imagery. We show how we can detect informal settlements by combining both domain knowledge and machine learning techniques, to build a classifier that looks for known roofing materials used in informal settlements. Please find additional material at https://frontierdevelopmentlab.github.io/informal-settlements/.

Detecting and mapping informal settlements encompasses several of the United Nations sustainable development goals. This is because informal settlements are home to the most socially and economically vulnerable people on the planet. Thus, understanding where these settlements are is of paramount importance to both government and non-government organizations (NGOs), such as the United Nations Children's Fund (UNICEF), who can use this information to deliver effective social and economic aid. We propose two effective methods for detecting and mapping the locations of informal settlements. One uses only low-resolution (LR), freely available, Sentinel-2 multispectral satellite imagery with noisy annotations, whilst the other is a deep learning approach that uses only costly very-high-resolution (VHR) satellite imagery. To our knowledge, we are the first to map informal settlements successfully with low-resolution satellite imagery. We extensively evaluate and compare the proposed methods. Please find additional material at https://frontierdevelopmentlab.github.io/informal-settlements/.