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The remarkable success of GPT models across various tasks, including toponymy recognition motivates us to assess the performance of the GPT-3 model in the geocoding address parsing task. To ensure that the evaluation more accurately mirrors performance in real-world scenarios with diverse user input qualities and resolve the pressing need for a 'gold standard' evaluation dataset for geocoding systems, we introduce a benchmark dataset of low-quality address descriptions synthesized based on human input patterns mining from actual input logs of a geocoding system in production. This dataset has 21 different input errors and variations; contains over 239,000 address records that are uniquely selected from streets across all U.S. 50 states and D.C.; and consists of three subsets to be used as training, validation, and testing sets. Building on this, we train and gauge the performance of the GPT-3 model in extracting address components, contrasting its performance with transformer-based and LSTM-based models. The evaluation results indicate that Bidirectional LSTM-CRF model has achieved the best performance over these transformer-based models and GPT-3 model. Transformer-based models demonstrate very comparable results compared to the Bidirectional LSTM-CRF model. The GPT-3 model, though trailing in performance, showcases potential in the address parsing task with few-shot examples, exhibiting room for improvement with additional fine-tuning. We open source the code and data of this presented benchmark so that researchers can utilize it for future model development or extend it to evaluate similar tasks, such as document geocoding.

Several visual tasks, such as pedestrian detection and image-to-image translation, are challenging to accomplish in low light using RGB images. Heat variation of objects in thermal images can be used to overcome this. In this work, an end-to-end framework, which consists of a generative network and a detector network, is proposed to translate RGB image into Thermal ones and compare generated thermal images with real data. We have collected images from two different locations using the Parrot Anafi Thermal drone. After that, we created a two-stream network, preprocessed, augmented, the image data, and trained the generator and discriminator models from scratch. The findings demonstrate that it is feasible to translate RGB training data to thermal data using GAN. As a result, thermal data can now be produced more quickly and affordably, which is useful for security and surveillance applications.

Building efficient, accurate and generalizable reduced order models of developed turbulence remains a major challenge. This manuscript approaches this problem by developing a hierarchy of parameterized reduced Lagrangian models for turbulent flows, and investigates the effects of enforcing physical structure through Smoothed Particle Hydrodynamics (SPH) versus relying on neural networks (NN)s as universal function approximators. Starting from Neural Network (NN) parameterizations of a Lagrangian acceleration operator, this hierarchy of models gradually incorporates a weakly compressible and parameterized SPH framework, which enforces physical symmetries, such as Galilean, rotational and translational invariances. Within this hierarchy, two new parameterized smoothing kernels are developed in order to increase the flexibility of the learn-able SPH simulators. For each model we experiment with different loss functions which are minimized using gradient based optimization, where efficient computations of gradients are obtained by using Automatic Differentiation (AD) and Sensitivity Analysis (SA). Each model within the hierarchy is trained on two data sets associated with weekly compressible Homogeneous Isotropic Turbulence (HIT): (1) a validation set using weakly compressible SPH; and (2) a high fidelity set from Direct Numerical Simulations (DNS). Numerical evidence shows that encoding more SPH structure improves generalizability to different turbulent Mach numbers and time shifts, and that including the novel parameterized smoothing kernels improves the accuracy of SPH at the resolved scales.

Question Answering (QA) systems on patient-related data can assist both clinicians and patients. They can, for example, assist clinicians in decision-making and enable patients to have a better understanding of their medical history. Significant amounts of patient data are stored in Electronic Health Records (EHRs), making EHR QA an important research area. In EHR QA, the answer is obtained from the medical record of the patient. Because of the differences in data format and modality, this differs greatly from other medical QA tasks that employ medical websites or scientific papers to retrieve answers, making it critical to research EHR question answering. This study aimed to provide a methodological review of existing works on QA over EHRs. We searched for articles from January 1st, 2005 to September 30th, 2023 in four digital sources including Google Scholar, ACL Anthology, ACM Digital Library, and PubMed to collect relevant publications on EHR QA. 4111 papers were identified for our study, and after screening based on our inclusion criteria, we obtained a total of 47 papers for further study. Out of the 47 papers, 25 papers were about EHR QA datasets, and 37 papers were about EHR QA models. It was observed that QA on EHRs is relatively new and unexplored. Most of the works are fairly recent. Also, it was observed that emrQA is by far the most popular EHR QA dataset, both in terms of citations and usage in other papers. Furthermore, we identified the different models used in EHR QA along with the evaluation metrics used for these models.

Automatic prostate segmentation in TRUS images has always been a challenging problem, since prostates in TRUS images have ambiguous boundaries and inhomogeneous intensity distribution. Although many prostate segmentation methods have been proposed, they still need to be improved due to the lack of sensibility to edge information. Consequently, the objective of this study is to devise a highly effective prostate segmentation method that overcomes these limitations and achieves accurate segmentation of prostates in TRUS images. A 3D edge-aware attention generative adversarial network (3D EAGAN)-based prostate segmentation method is proposed in this paper, which consists of an edge-aware segmentation network (EASNet) that performs the prostate segmentation and a discriminator network that distinguishes predicted prostates from real prostates. The proposed EASNet is composed of an encoder-decoder-based U-Net backbone network, a detail compensation module, four 3D spatial and channel attention modules, an edge enhance module, and a global feature extractor. The detail compensation module is proposed to compensate for the loss of detailed information caused by the down-sampling process of the encoder. The features of the detail compensation module are selectively enhanced by the 3D spatial and channel attention module. Furthermore, an edge enhance module is proposed to guide shallow layers in the EASNet to focus on contour and edge information in prostates. Finally, features from shallow layers and hierarchical features from the decoder module are fused through the global feature extractor to predict the segmentation prostates.

1. Automated analysis of bioacoustic recordings using machine learning (ML) methods has the potential to greatly scale biodiversity monitoring efforts. The use of ML for high-stakes applications, such as conservation research, demands a data-centric approach with a focus on utilizing carefully annotated and curated evaluation and training data that is relevant and representative. Creating annotated datasets of sound recordings presents a number of challenges, such as managing large collections of recordings with associated metadata, developing flexible annotation tools that can accommodate the diverse range of vocalization profiles of different organisms, and addressing the scarcity of expert annotators. 2. We present Whombat a user-friendly, browser-based interface for managing audio recordings and annotation projects, with several visualization, exploration, and annotation tools. It enables users to quickly annotate, review, and share annotations, as well as visualize and evaluate a set of machine learning predictions on a dataset. The tool facilitates an iterative workflow where user annotations and machine learning predictions feedback to enhance model performance and annotation quality. 3. We demonstrate the flexibility of Whombat by showcasing two distinct use cases: an project aimed at enhancing automated UK bat call identification at the Bat Conservation Trust (BCT), and a collaborative effort among the USDA Forest Service and Oregon State University researchers exploring bioacoustic applications and extending automated avian classification models in the Pacific Northwest, USA. 4. Whombat is a flexible tool that can effectively address the challenges of annotation for bioacoustic research. It can be used for individual and collaborative work, hosted on a shared server or accessed remotely, or run on a personal computer without the need for coding skills.

Modern high-throughput sequencing assays efficiently capture not only gene expression and different levels of gene regulation but also a multitude of genome variants. Focused analysis of alternative alleles of variable sites at homologous chromosomes of the human genome reveals allele-specific gene expression and allele-specific gene regulation by assessing allelic imbalance of read counts at individual sites. Here we formally describe an advanced statistical framework for detecting the allelic imbalance in allelic read counts at single-nucleotide variants detected in diverse omics studies (ChIP-Seq, ATAC-Seq, DNase-Seq, CAGE-Seq, and others). MIXALIME accounts for copy-number variants and aneuploidy, reference read mapping bias, and provides several scoring models to balance between sensitivity and specificity when scoring data with varying levels of experimental noise-caused overdispersion.

SCONE-GAN presents an end-to-end image translation, which is shown to be effective for learning to generate realistic and diverse scenery images. Most current image-to-image translation approaches are devised as two mappings: a translation from the source to target domain and another to represent its inverse. While successful in many applications, these approaches may suffer from generating trivial solutions with limited diversity. That is because these methods learn more frequent associations rather than the scene structures. To mitigate the problem, we propose SCONE-GAN that utilises graph convolutional networks to learn the objects dependencies, maintain the image structure and preserve its semantics while transferring images into the target domain. For more realistic and diverse image generation we introduce style reference image. We enforce the model to maximize the mutual information between the style image and output. The proposed method explicitly maximizes the mutual information between the related patches, thus encouraging the generator to produce more diverse images. We validate the proposed algorithm for image-to-image translation and stylizing outdoor images. Both qualitative and quantitative results demonstrate the effectiveness of our approach on four dataset.

This paper introduces an extended tensor decomposition (XTD) method for model reduction. The proposed method is based on a sparse non-separated enrichment to the conventional tensor decomposition, which is expected to improve the approximation accuracy and the reducibility (compressibility) in highly nonlinear and singular cases. The proposed XTD method can be a powerful tool for solving nonlinear space-time parametric problems. The method has been successfully applied to parametric elastic-plastic problems and real time additive manufacturing residual stress predictions with uncertainty quantification. Furthermore, a combined XTD-SCA (self-consistent clustering analysis) strategy has been presented for multi-scale material modeling, which enables real time multi-scale multi-parametric simulations. The efficiency of the method is demonstrated with comparison to finite element analysis. The proposed method enables a novel framework for fast manufacturing and material design with uncertainties.

We present ResMLP, an architecture built entirely upon multi-layer perceptrons for image classification. It is a simple residual network that alternates (i) a linear layer in which image patches interact, independently and identically across channels, and (ii) a two-layer feed-forward network in which channels interact independently per patch. When trained with a modern training strategy using heavy data-augmentation and optionally distillation, it attains surprisingly good accuracy/complexity trade-offs on ImageNet. We will share our code based on the Timm library and pre-trained models.