Predicting genetic mutations from whole slide images is indispensable for cancer diagnosis. However, existing work training multiple binary classification models faces two challenges: (a) Training multiple binary classifiers is inefficient and would inevitably lead to a class imbalance problem. (b) The biological relationships among genes are overlooked, which limits the prediction performance. To tackle these challenges, we innovatively design a Biological-knowledge enhanced PathGenomic multi-label Transformer to improve genetic mutation prediction performances. BPGT first establishes a novel gene encoder that constructs gene priors by two carefully designed modules: (a) A gene graph whose node features are the genes' linguistic descriptions and the cancer phenotype, with edges modeled by genes' pathway associations and mutation consistencies. (b) A knowledge association module that fuses linguistic and biomedical knowledge into gene priors by transformer-based graph representation learning, capturing the intrinsic relationships between different genes' mutations. BPGT then designs a label decoder that finally performs genetic mutation prediction by two tailored modules: (a) A modality fusion module that firstly fuses the gene priors with critical regions in WSIs and obtains gene-wise mutation logits. (b) A comparative multi-label loss that emphasizes the inherent comparisons among mutation status to enhance the discrimination capabilities. Sufficient experiments on The Cancer Genome Atlas benchmark demonstrate that BPGT outperforms the state-of-the-art.
Subgroup-discovery methods allow users to obtain simple descriptions of interesting regions in a dataset. Using constraints in subgroup discovery can enhance interpretability even further. In this article, we focus on two types of constraints: First, we limit the number of features used in subgroup descriptions, making the latter sparse. Second, we propose the novel optimization problem of finding alternative subgroup descriptions, which cover a similar set of data objects as a given subgroup but use different features. We describe how to integrate both constraint types into heuristic subgroup-discovery methods. Further, we propose a novel Satisfiability Modulo Theories (SMT) formulation of subgroup discovery as a white-box optimization problem, which allows solver-based search for subgroups and is open to a variety of constraint types. Additionally, we prove that both constraint types lead to an NP-hard optimization problem. Finally, we employ 27 binary-classification datasets to compare heuristic and solver-based search for unconstrained and constrained subgroup discovery. We observe that heuristic search methods often yield high-quality subgroups within a short runtime, also in scenarios with constraints.
A dramatic influx of diffusion-generated images has marked recent years, posing unique challenges to current detection technologies. While the task of identifying these images falls under binary classification, a seemingly straightforward category, the computational load is significant when employing the "reconstruction then compare" technique. This approach, known as DIRE (Diffusion Reconstruction Error), not only identifies diffusion-generated images but also detects those produced by GANs, highlighting the technique's broad applicability. To address the computational challenges and improve efficiency, we propose distilling the knowledge embedded in diffusion models to develop rapid deepfake detection models. Our approach, aimed at creating a small, fast, cheap, and lightweight diffusion synthesized deepfake detector, maintains robust performance while significantly reducing operational demands. Maintaining performance, our experimental results indicate an inference speed 3.2 times faster than the existing DIRE framework. This advance not only enhances the practicality of deploying these systems in real-world settings but also paves the way for future research endeavors that seek to leverage diffusion model knowledge.
Entity Matching (EM) is a critical task in numerous fields, such as healthcare, finance, and public administration, as it identifies records that refer to the same entity within or across different databases. EM faces considerable challenges, particularly with false positives and negatives. These are typically addressed by generating matching scores and apply thresholds to balance false positives and negatives in various contexts. However, adjusting these thresholds can affect the fairness of the outcomes, a critical factor that remains largely overlooked in current fair EM research. The existing body of research on fair EM tends to concentrate on static thresholds, neglecting their critical impact on fairness. To address this, we introduce a new approach in EM using recent metrics for evaluating biases in score based binary classification, particularly through the lens of distributional parity. This approach enables the application of various bias metrics like equalized odds, equal opportunity, and demographic parity without depending on threshold settings. Our experiments with leading matching methods reveal potential biases, and by applying a calibration technique for EM scores using Wasserstein barycenters, we not only mitigate these biases but also preserve accuracy across real world datasets. This paper contributes to the field of fairness in data cleaning, especially within EM, which is a central task in data cleaning, by promoting a method for generating matching scores that reduce biases across different thresholds.
Natural language is often the easiest and most convenient modality for humans to specify tasks for robots. However, learning to ground language to behavior typically requires impractical amounts of diverse, language-annotated demonstrations collected on each target robot. In this work, we aim to separate the problem of what to accomplish from how to accomplish it, as the former can benefit from substantial amounts of external observation-only data, and only the latter depends on a specific robot embodiment. To this end, we propose Video-Language Critic, a reward model that can be trained on readily available cross-embodiment data using contrastive learning and a temporal ranking objective, and use it to score behavior traces from a separate actor. When trained on Open X-Embodiment data, our reward model enables 2x more sample-efficient policy training on Meta-World tasks than a sparse reward only, despite a significant domain gap. Using in-domain data but in a challenging task generalization setting on Meta-World, we further demonstrate more sample-efficient training than is possible with prior language-conditioned reward models that are either trained with binary classification, use static images, or do not leverage the temporal information present in video data.
We derive closed-form expressions for the Bayes optimal decision boundaries in binary classification of high dimensional overlapping Gaussian mixture model (GMM) data, and show how they depend on the eigenstructure of the class covariances, for particularly interesting structured data. We empirically demonstrate, through experiments on synthetic GMMs inspired by real-world data, that deep neural networks trained for classification, learn predictors which approximate the derived optimal classifiers. We further extend our study to networks trained on authentic data, observing that decision thresholds correlate with the covariance eigenvectors rather than the eigenvalues, mirroring our GMM analysis. This provides theoretical insights regarding neural networks' ability to perform probabilistic inference and distill statistical patterns from intricate distributions.
Weakly-supervised segmentation (WSS) methods, reliant on image-level labels indicating object presence, lack explicit correspondence between labels and regions of interest (ROIs), posing a significant challenge. Despite this, WSS methods have attracted attention due to their much lower annotation costs compared to fully-supervised segmentation. Leveraging reinforcement learning (RL) self-play, we propose a novel WSS method that gamifies image segmentation of a ROI. We formulate segmentation as a competition between two agents that compete to select ROI-containing patches until exhaustion of all such patches. The score at each time-step, used to compute the reward for agent training, represents likelihood of object presence within the selection, determined by an object presence detector pre-trained using only image-level binary classification labels of object presence. Additionally, we propose a game termination condition that can be called by either side upon exhaustion of all ROI-containing patches, followed by the selection of a final patch from each. Upon termination, the agent is incentivised if ROI-containing patches are exhausted or disincentivised if an ROI-containing patch is found by the competitor. This competitive setup ensures minimisation of over- or under-segmentation, a common problem with WSS methods. Extensive experimentation across four datasets demonstrates significant performance improvements over recent state-of-the-art methods. Code: https://github.com/s-sd/spurl/tree/main/wss
Dynamic Link Prediction (DLP) addresses the prediction of future links in evolving networks. However, accurately portraying the performance of DLP algorithms poses challenges that might impede progress in the field. Importantly, common evaluation pipelines usually calculate ranking or binary classification metrics, where the scores of observed interactions (positives) are compared with those of randomly generated ones (negatives). However, a single metric is not sufficient to fully capture the differences between DLP algorithms, and is prone to overly optimistic performance evaluation. Instead, an in-depth evaluation should reflect performance variations across different nodes, edges, and time segments. In this work, we contribute tools to perform such a comprehensive evaluation. (1) We propose Birth-Death diagrams, a simple but powerful visualization technique that illustrates the effect of time-based train-test splitting on the difficulty of DLP on a given dataset. (2) We describe an exhaustive taxonomy of negative sampling methods that can be used at evaluation time. (3) We carry out an empirical study of the effect of the different negative sampling strategies. Our comparison between heuristics and state-of-the-art memory-based methods on various real-world datasets confirms a strong effect of using different negative sampling strategies on the test Area Under the Curve (AUC). Moreover, we conduct a visual exploration of the prediction, with additional insights on which different types of errors are prominent over time.
Many evaluation metrics can be used to assess the performance of models in binary classification tasks. However, most of them are derived from a confusion matrix in a non-differentiable form, making it very difficult to generate a differentiable loss function that could directly optimize them. The lack of solutions to bridge this challenge not only hinders our ability to solve difficult tasks, such as imbalanced learning, but also requires the deployment of computationally expensive hyperparameter search processes in model selection. In this paper, we propose a general-purpose approach that transforms any confusion matrix-based metric into a loss function, \textit{AnyLoss}, that is available in optimization processes. To this end, we use an approximation function to make a confusion matrix represented in a differentiable form, and this approach enables any confusion matrix-based metric to be directly used as a loss function. The mechanism of the approximation function is provided to ensure its operability and the differentiability of our loss functions is proved by suggesting their derivatives. We conduct extensive experiments under diverse neural networks with many datasets, and we demonstrate their general availability to target any confusion matrix-based metrics. Our method, especially, shows outstanding achievements in dealing with imbalanced datasets, and its competitive learning speed, compared to multiple baseline models, underscores its efficiency.
In this study, we explore the potential of using quantum natural language processing (QNLP) to inverse design metal-organic frameworks (MOFs) with targeted properties. Specifically, by analyzing 450 hypothetical MOF structures consisting of 3 topologies, 10 metal nodes and 15 organic ligands, we categorize these structures into four distinct classes for pore volume and $CO_{2}$ Henry's constant values. We then compare various QNLP models (i.e. the bag-of-words, DisCoCat (Distributional Compositional Categorical), and sequence-based models) to identify the most effective approach to process the MOF dataset. Using a classical simulator provided by the IBM Qiskit, the bag-of-words model is identified to be the optimum model, achieving validation accuracies of 88.6% and 78.0% for binary classification tasks on pore volume and $CO_{2}$ Henry's constant, respectively. Further, we developed multi-class classification models tailored to the probabilistic nature of quantum circuits, with average test accuracies of 92% and 80% across different classes for pore volume and $CO_{2}$ Henry's constant datasets. Finally, the performance of generating MOF with target properties showed accuracies of 93.5% for pore volume and 87% for $CO_{2}$ Henry's constant, respectively. Although our investigation covers only a fraction of the vast MOF search space, it marks a promising first step towards using quantum computing for materials design, offering a new perspective through which to explore the complex landscape of MOFs.
Algorithmic bias is a major issue in machine learning models in educational contexts. However, it has not yet been studied thoroughly in Asian learning contexts, and only limited work has considered algorithmic bias based on regional (sub-national) background. As a step towards addressing this gap, this paper examines the population of 5,986 students at a large university in the Philippines, investigating algorithmic bias based on students' regional background. The university used the Canvas learning management system (LMS) in its online courses across a broad range of domains. Over the period of three semesters, we collected 48.7 million log records of the students' activity in Canvas. We used these logs to train binary classification models that predict student grades from the LMS activity. The best-performing model reached AUC of 0.75 and weighted F1-score of 0.79. Subsequently, we examined the data for bias based on students' region. Evaluation using three metrics: AUC, weighted F1-score, and MADD showed consistent results across all demographic groups. Thus, no unfairness was observed against a particular student group in the grade predictions.
Hyperspectral target detection (HTD) aims to identify specific materials based on spectral information in hyperspectral imagery and can detect extremely small objects, some of which occupy a smaller than one-pixel area. However, existing HTD methods are developed based on per-pixel binary classification, which limits the feature representation capability for instance-level objects. In this paper, we rethink the hyperspectral target detection from the point object detection perspective, and propose the first specialized network for hyperspectral multi-class point object detection, SpecDETR. Without the visual foundation model of the current object detection framework, SpecDETR treats each pixel in input images as a token and uses a multi-layer Transformer encoder with self-excited subpixel-scale attention modules to directly extract joint spatial-spectral features from images. During feature extraction, we introduce a self-excited mechanism to enhance object features through self-excited amplification, thereby accelerating network convergence. Additionally, SpecDETR regards point object detection as a one-to-many set prediction problem, thereby achieving a concise and efficient DETR decoder that surpasses the state-of-the-art (SOTA) DETR decoder. We develop a simulated hyperSpectral Point Object Detection benchmark termed SPOD, and for the first time, evaluate and compare the performance of current object detection networks and HTD methods on hyperspectral point object detection. Extensive experiments demonstrate that our proposed SpecDETR outperforms SOTA object detection networks and HTD methods. Our code and dataset are available at https://github.com/ZhaoxuLi123/SpecDETR.
The accelerated progress of artificial intelligence (AI) has popularized deep learning models across domains, yet their inherent opacity poses challenges, notably in critical fields like healthcare, medicine and the geosciences. Explainable AI (XAI) has emerged to shed light on these "black box" models, helping decipher their decision making process. Nevertheless, different XAI methods yield highly different explanations. This inter-method variability increases uncertainty and lowers trust in deep networks' predictions. In this study, for the first time, we propose a novel framework designed to enhance the explainability of deep networks, by maximizing both the accuracy and the comprehensibility of the explanations. Our framework integrates various explanations from established XAI methods and employs a non-linear "explanation optimizer" to construct a unique and optimal explanation. Through experiments on multi-class and binary classification tasks in 2D object and 3D neuroscience imaging, we validate the efficacy of our approach. Our explanation optimizer achieved superior faithfulness scores, averaging 155% and 63% higher than the best performing XAI method in the 3D and 2D applications, respectively. Additionally, our approach yielded lower complexity, increasing comprehensibility. Our results suggest that optimal explanations based on specific criteria are derivable and address the issue of inter-method variability in the current XAI literature.
Pre-trained large language models (LLM) have emerged as a powerful tool for simulating various scenarios and generating output given specific instructions and multimodal input. In this work, we analyze the specific use of LLM to enhance a classical supervised machine learning method for classification problems. We propose a few approaches to integrate LLM into a classical machine learning estimator to further enhance the prediction performance. We examine the performance of the proposed approaches through both standard supervised learning binary classification tasks, and a transfer learning task where the test data observe distribution changes compared to the training data. Numerical experiments using four publicly available datasets are conducted and suggest that using LLM to enhance classical machine learning estimators can provide significant improvement on prediction performance.
Hoaxes are a recognised form of disinformation created deliberately, with potential serious implications in the credibility of reference knowledge resources such as Wikipedia. What makes detecting Wikipedia hoaxes hard is that they often are written according to the official style guidelines. In this work, we first provide a systematic analysis of similarities and discrepancies between legitimate and hoax Wikipedia articles, and introduce Hoaxpedia, a collection of 311 hoax articles (from existing literature and official Wikipedia lists), together with semantically similar legitimate articles, which together form a binary text classification dataset aimed at fostering research in automated hoax detection. In this paper, We report results after analyzing several language models, hoax-to-legit ratios, and the amount of text classifiers are exposed to (full article vs the article's definition alone). Our results suggest that detecting deceitful content in Wikipedia based on content alone is hard but feasible, and complement our analysis with a study on the differences in distributions in edit histories, and find that looking at this feature yields better classification results than context.
Quantum machine learning (QML) has the potential for improving the multi-label classification of rare, albeit critical, diseases in large-scale chest x-ray (CXR) datasets due to theoretical quantum advantages over classical machine learning (CML) in sample efficiency and generalizability. While prior literature has explored QML with CXRs, it has focused on binary classification tasks with small datasets due to limited access to quantum hardware and computationally expensive simulations. To that end, we implemented a Jax-based framework that enables the simulation of medium-sized qubit architectures with significant improvements in wall-clock time over current software offerings. We evaluated the performance of our Jax-based framework in terms of efficiency and performance for hybrid quantum transfer learning for long-tailed classification across 8, 14, and 19 disease labels using large-scale CXR datasets. The Jax-based framework resulted in up to a 58% and 95% speed-up compared to PyTorch and TensorFlow implementations, respectively. However, compared to CML, QML demonstrated slower convergence and an average AUROC of 0.70, 0.73, and 0.74 for the classification of 8, 14, and 19 CXR disease labels. In comparison, the CML models had an average AUROC of 0.77, 0.78, and 0.80 respectively. In conclusion, our work presents an accessible implementation of hybrid quantum transfer learning for long-tailed CXR classification with a computationally efficient Jax-based framework.
The ability to distinguish whether an image is generated by artificial intelligence (AI) is a crucial ingredient in human intelligence, usually accompanied by a complex and dialectical forensic and reasoning process. However, current fake image detection models and databases focus on binary classification without understandable explanations for the general populace. This weakens the credibility of authenticity judgment and may conceal potential model biases. Meanwhile, large multimodal models (LMMs) have exhibited immense visual-text capabilities on various tasks, bringing the potential for explainable fake image detection. Therefore, we pioneer the probe of LMMs for explainable fake image detection by presenting a multimodal database encompassing textual authenticity descriptions, the FakeBench. For construction, we first introduce a fine-grained taxonomy of generative visual forgery concerning human perception, based on which we collect forgery descriptions in human natural language with a human-in-the-loop strategy. FakeBench examines LMMs with four evaluation criteria: detection, reasoning, interpretation and fine-grained forgery analysis, to obtain deeper insights into image authenticity-relevant capabilities. Experiments on various LMMs confirm their merits and demerits in different aspects of fake image detection tasks. This research presents a paradigm shift towards transparency for the fake image detection area and reveals the need for greater emphasis on forensic elements in visual-language research and AI risk control. FakeBench will be available at https://github.com/Yixuan423/FakeBench.
Crowd localization targets on predicting each instance precise location within an image. Current advanced methods propose the pixel-wise binary classification to tackle the congested prediction, in which the pixel-level thresholds binarize the prediction confidence of being the pedestrian head. Since the crowd scenes suffer from extremely varying contents, counts and scales, the confidence-threshold learner is fragile and under-generalized encountering domain knowledge shift. Moreover, at the most time, the target domain is agnostic in training. Hence, it is imperative to exploit how to enhance the generalization of confidence-threshold locator to the latent target domain. In this paper, we propose a Dynamic Proxy Domain (DPD) method to generalize the learner under domain shift. Concretely, based on the theoretical analysis to the generalization error risk upper bound on the latent target domain to a binary classifier, we propose to introduce a generated proxy domain to facilitate generalization. Then, based on the theory, we design a DPD algorithm which is composed by a training paradigm and proxy domain generator to enhance the domain generalization of the confidence-threshold learner. Besides, we conduct our method on five kinds of domain shift scenarios, demonstrating the effectiveness on generalizing the crowd localization. Our code will be available at https://github.com/zhangda1018/DPD.
The prevalence of digital media and evolving sociopolitical dynamics have significantly amplified the dissemination of hateful content. Existing studies mainly focus on classifying texts into binary categories, often overlooking the continuous spectrum of offensiveness and hatefulness inherent in the text. In this research, we present an extensive benchmark dataset for Amharic, comprising 8,258 tweets annotated for three distinct tasks: category classification, identification of hate targets, and rating offensiveness and hatefulness intensities. Our study highlights that a considerable majority of tweets belong to the less offensive and less hate intensity levels, underscoring the need for early interventions by stakeholders. The prevalence of ethnic and political hatred targets, with significant overlaps in our dataset, emphasizes the complex relationships within Ethiopia's sociopolitical landscape. We build classification and regression models and investigate the efficacy of models in handling these tasks. Our results reveal that hate and offensive speech can not be addressed by a simplistic binary classification, instead manifesting as variables across a continuous range of values. The Afro-XLMR-large model exhibits the best performances achieving F1-scores of 75.30%, 70.59%, and 29.42% for the category, target, and regression tasks, respectively. The 80.22% correlation coefficient of the Afro-XLMR-large model indicates strong alignments.
Images captured from the real world are often affected by different types of noise, which can significantly impact the performance of Computer Vision systems and the quality of visual data. This study presents a novel approach for defect detection in casting product noisy images, specifically focusing on submersible pump impellers. The methodology involves utilizing deep learning models such as VGG16, InceptionV3, and other models in both the spatial and frequency domains to identify noise types and defect status. The research process begins with preprocessing images, followed by applying denoising techniques tailored to specific noise categories. The goal is to enhance the accuracy and robustness of defect detection by integrating noise detection and denoising into the classification pipeline. The study achieved remarkable results using VGG16 for noise type classification in the frequency domain, achieving an accuracy of over 99%. Removal of salt and pepper noise resulted in an average SSIM of 87.9, while Gaussian noise removal had an average SSIM of 64.0, and periodic noise removal yielded an average SSIM of 81.6. This comprehensive approach showcases the effectiveness of the deep AutoEncoder model and median filter, for denoising strategies in real-world industrial applications. Finally, our study reports significant improvements in binary classification accuracy for defect detection compared to previous methods. For the VGG16 classifier, accuracy increased from 94.6% to 97.0%, demonstrating the effectiveness of the proposed noise detection and denoising approach. Similarly, for the InceptionV3 classifier, accuracy improved from 84.7% to 90.0%, further validating the benefits of integrating noise analysis into the classification pipeline.