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After a machine learning (ML)-based system is deployed in clinical practice, performance monitoring is important to ensure the safety and effectiveness of the algorithm over time. The goal of this work is to highlight the complexity of designing a monitoring strategy and the need for a systematic framework that compares the multitude of monitoring options. One of the main decisions is choosing between using real-world (observational) versus interventional data. Although the former is the most convenient source of monitoring data, it exhibits well-known biases, such as confounding, selection, and missingness. In fact, when the ML algorithm interacts with its environment, the algorithm itself may be a primary source of bias. On the other hand, a carefully designed interventional study that randomizes individuals can explicitly eliminate such biases, but the ethics, feasibility, and cost of such an approach must be carefully considered. Beyond the decision of the data source, monitoring strategies vary in the performance criteria they track, the interpretability of the test statistics, the strength of their assumptions, and their speed at detecting performance decay. As a first step towards developing a framework that compares the various monitoring options, we consider a case study of an ML-based risk prediction algorithm for postoperative nausea and vomiting (PONV). Bringing together tools from causal inference and statistical process control, we walk through the basic steps of defining candidate monitoring criteria, describing potential sources of bias and the causal model, and specifying and comparing candidate monitoring procedures. We hypothesize that these steps can be applied more generally, as causal inference can address other sources of biases as well.

The interpretability of deep neural networks has become a subject of great interest within the medical and healthcare domain. This attention stems from concerns regarding transparency, legal and ethical considerations, and the medical significance of predictions generated by these deep neural networks in clinical decision support systems. To address this matter, our study delves into the application of four well-established interpretability methods: Local Interpretable Model-agnostic Explanations (LIME), Shapley Additive exPlanations (SHAP), Gradient-weighted Class Activation Mapping (Grad-CAM), and Layer-wise Relevance Propagation (LRP). Leveraging the approach of transfer learning with a multi-label-multi-class chest radiography dataset, we aim to interpret predictions pertaining to specific pathology classes. Our analysis encompasses both single-label and multi-label predictions, providing a comprehensive and unbiased assessment through quantitative and qualitative investigations, which are compared against human expert annotation. Notably, Grad-CAM demonstrates the most favorable performance in quantitative evaluation, while the LIME heatmap score segmentation visualization exhibits the highest level of medical significance. Our research underscores both the outcomes and the challenges faced in the holistic approach adopted for assessing these interpretability methods and suggests that a multimodal-based approach, incorporating diverse sources of information beyond chest radiography images, could offer additional insights for enhancing interpretability in the medical domain.

Pathological alterations in the human vascular system underlie many chronic diseases, such as atherosclerosis and aneurysms. However, manually analyzing diagnostic images of the vascular system, such as computed tomographic angiograms (CTAs) is a time-consuming and tedious process. To address this issue, we propose a deep learning model to segment the vascular system in CTA images of patients undergoing surgery for peripheral arterial disease (PAD). Our study focused on accurately segmenting the vascular system (1) from the descending thoracic aorta to the iliac bifurcation and (2) from the descending thoracic aorta to the knees in CTA images using deep learning techniques. Our approach achieved average Dice accuracies of 93.5% and 80.64% in test dataset for (1) and (2), respectively, highlighting its high accuracy and potential clinical utility. These findings demonstrate the use of deep learning techniques as a valuable tool for medical professionals to analyze the health of the vascular system efficiently and accurately. Please visit the GitHub page for this paper at //github.com/pip-alireza/TransOnet.

Diagnosis of breast cancer malignancy at the early stages is a crucial step for controlling its side effects. Histopathological analysis provides a unique opportunity for malignant breast cancer detection. However, such a task would be tedious and time-consuming for the histopathologists. Deep Neural Networks enable us to learn informative features directly from raw histopathological images without manual feature extraction. Although Convolutional Neural Networks (CNNs) have been the dominant architectures in the computer vision realm, Transformer-based architectures have shown promising results in different computer vision tasks. Although harnessing the capability of Transformer-based architectures for medical image analysis seems interesting, these architectures are large, have a significant number of trainable parameters, and require large datasets to be trained on, which are usually rare in the medical domain. It has been claimed and empirically proved that at least part of the superior performance of Transformer-based architectures in Computer Vision domain originates from patch embedding operation. In this paper, we borrowed the previously introduced idea of integrating a fully Convolutional Neural Network architecture with Patch Embedding operation and presented an efficient CNN architecture for breast cancer malignancy detection from histopathological images. Despite the number of parameters that is significantly smaller than other methods, the accuracy performance metrics achieved 97.65%, 98.92%, 99.21%, and 98.01% for 40x, 100x, 200x, and 400x magnifications respectively. We took a step forward and modified the architecture using Group Convolution and Channel Shuffling ideas and reduced the number of trainable parameters even more with a negligible decline in performance and achieved 95.42%, 98.16%, 96.05%, and 97.92% accuracy for the mentioned magnifications respectively.

LLMs are being increasingly used for planning-style tasks, but their capabilities for planning and reasoning are poorly understood. We present a novel method for automatically converting planning benchmarks written in PDDL into textual descriptions and offer a benchmark dataset created with our method. We show that while the best LLM planners do well on many planning tasks, others remain out of reach of current methods.

In surgical procedures, correct instrument counting is essential. Instance segmentation is a location method that locates not only an object's bounding box but also each pixel's specific details. However, obtaining mask-level annotations is labor-intensive in instance segmentation. To address this issue, we propose a novel yet effective weakly-supervised surgical instrument instance segmentation approach, named Point-based Weakly-supervised Instance Segmentation (PWISeg). PWISeg adopts an FCN-based architecture with point-to-box and point-to-mask branches to model the relationships between feature points and bounding boxes, as well as feature points and segmentation masks on FPN, accomplishing instrument detection and segmentation jointly in a single model. Since mask level annotations are hard to available in the real world, for point-to-mask training, we introduce an unsupervised projection loss, utilizing the projected relation between predicted masks and bboxes as supervision signal. On the other hand, we annotate a few pixels as the key pixel for each instrument. Based on this, we further propose a key pixel association loss and a key pixel distribution loss, driving the point-to-mask branch to generate more accurate segmentation predictions. To comprehensively evaluate this task, we unveil a novel surgical instrument dataset with manual annotations, setting up a benchmark for further research. Our comprehensive research trial validated the superior performance of our PWISeg. The results show that the accuracy of surgical instrument segmentation is improved, surpassing most methods of instance segmentation via weakly supervised bounding boxes. This improvement is consistently observed in our proposed dataset and when applied to the public HOSPI-Tools dataset.

Human-in-the-loop aims to train an accurate prediction model with minimum cost by integrating human knowledge and experience. Humans can provide training data for machine learning applications and directly accomplish some tasks that are hard for computers in the pipeline with the help of machine-based approaches. In this paper, we survey existing works on human-in-the-loop from a data perspective and classify them into three categories with a progressive relationship: (1) the work of improving model performance from data processing, (2) the work of improving model performance through interventional model training, and (3) the design of the system independent human-in-the-loop. Using the above categorization, we summarize major approaches in the field, along with their technical strengths/ weaknesses, we have simple classification and discussion in natural language processing, computer vision, and others. Besides, we provide some open challenges and opportunities. This survey intends to provide a high-level summarization for human-in-the-loop and motivates interested readers to consider approaches for designing effective human-in-the-loop solutions.

Graph neural networks (GNNs) have been proven to be effective in various network-related tasks. Most existing GNNs usually exploit the low-frequency signals of node features, which gives rise to one fundamental question: is the low-frequency information all we need in the real world applications? In this paper, we first present an experimental investigation assessing the roles of low-frequency and high-frequency signals, where the results clearly show that exploring low-frequency signal only is distant from learning an effective node representation in different scenarios. How can we adaptively learn more information beyond low-frequency information in GNNs? A well-informed answer can help GNNs enhance the adaptability. We tackle this challenge and propose a novel Frequency Adaptation Graph Convolutional Networks (FAGCN) with a self-gating mechanism, which can adaptively integrate different signals in the process of message passing. For a deeper understanding, we theoretically analyze the roles of low-frequency signals and high-frequency signals on learning node representations, which further explains why FAGCN can perform well on different types of networks. Extensive experiments on six real-world networks validate that FAGCN not only alleviates the over-smoothing problem, but also has advantages over the state-of-the-arts.

Although measuring held-out accuracy has been the primary approach to evaluate generalization, it often overestimates the performance of NLP models, while alternative approaches for evaluating models either focus on individual tasks or on specific behaviors. Inspired by principles of behavioral testing in software engineering, we introduce CheckList, a task-agnostic methodology for testing NLP models. CheckList includes a matrix of general linguistic capabilities and test types that facilitate comprehensive test ideation, as well as a software tool to generate a large and diverse number of test cases quickly. We illustrate the utility of CheckList with tests for three tasks, identifying critical failures in both commercial and state-of-art models. In a user study, a team responsible for a commercial sentiment analysis model found new and actionable bugs in an extensively tested model. In another user study, NLP practitioners with CheckList created twice as many tests, and found almost three times as many bugs as users without it.