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Jun 24

MOOZY: A Patient-First Foundation Model for Computational Pathology

Computational pathology needs whole-slide image (WSI) foundation models that transfer across diverse clinical tasks, yet current approaches remain largely slide-centric, often depend on private data and expensive paired-report supervision, and do not explicitly model relationships among multiple slides from the same patient. We present MOOZY, a patient-first pathology foundation model in which the patient case, not the individual slide, is the core unit of representation. MOOZY explicitly models dependencies across all slides from the same patient via a case transformer during pretraining, combining multi-stage open self-supervision with scaled low-cost task supervision. In Stage 1, we pretrain a vision-only slide encoder on 77,134 public slide feature grids using masked self-distillation. In Stage 2, we align these representations with clinical semantics using a case transformer and multi-task supervision over 333 tasks from 56 public datasets, including 205 classification and 128 survival tasks across four endpoints. Across eight held-out tasks with five-fold frozen-feature probe evaluation, MOOZY achieves best or tied-best performance on most metrics and improves macro averages over TITAN by +7.37%, +5.50%, and +7.83% and over PRISM by +8.83%, +10.70%, and +9.78% for weighted F1, weighted ROC-AUC, and balanced accuracy, respectively. MOOZY is also parameter efficient with 85.77M parameters, 14x smaller than GigaPath. These results demonstrate that open, reproducible patient-level pretraining yields transferable embeddings, providing a practical path toward scalable patient-first histopathology foundation models.

A Closer Look at AUROC and AUPRC under Class Imbalance

In machine learning (ML), a widespread adage is that the area under the precision-recall curve (AUPRC) is a superior metric for model comparison to the area under the receiver operating characteristic (AUROC) for binary classification tasks with class imbalance. This paper challenges this notion through novel mathematical analysis, illustrating that AUROC and AUPRC can be concisely related in probabilistic terms. We demonstrate that AUPRC, contrary to popular belief, is not superior in cases of class imbalance and might even be a harmful metric, given its inclination to unduly favor model improvements in subpopulations with more frequent positive labels. This bias can inadvertently heighten algorithmic disparities. Prompted by these insights, a thorough review of existing ML literature was conducted, utilizing large language models to analyze over 1.5 million papers from arXiv. Our investigation focused on the prevalence and substantiation of the purported AUPRC superiority. The results expose a significant deficit in empirical backing and a trend of misattributions that have fuelled the widespread acceptance of AUPRC's supposed advantages. Our findings represent a dual contribution: a significant technical advancement in understanding metric behaviors and a stark warning about unchecked assumptions in the ML community. All experiments are accessible at https://github.com/mmcdermott/AUC_is_all_you_need.

  • 5 authors
·
Jan 11, 2024

Optimizing Breast Cancer Detection in Mammograms: A Comprehensive Study of Transfer Learning, Resolution Reduction, and Multi-View Classification

Mammography, an X-ray-based imaging technique, remains central to the early detection of breast cancer. Recent advances in artificial intelligence have enabled increasingly sophisticated computer-aided diagnostic methods, evolving from patch-based classifiers to whole-image approaches and then to multi-view architectures that jointly analyze complementary projections. Despite this progress, several critical questions remain unanswered. In this study, we systematically investigate these issues by addressing five key research questions: (1) the role of patch classifiers in performance, (2) the transferability of natural-image-trained backbones, (3) the advantages of learn-to-resize over conventional downscaling, (4) the contribution of multi-view integration, and (5) the robustness of findings across varying image quality. Beyond benchmarking, our experiments demonstrate clear performance gains over prior work. For the CBIS-DDSM dataset, we improved single-view AUC from 0.8153 to 0.8343, and multiple-view AUC from 0.8483 to 0.8658. Using a new comparative method, we also observed a 0.0217 AUC increase when extending from single to multiple-view analysis. On the complete VinDr-Mammo dataset, the multiple-view approach further improved results, achieving a 0.0492 AUC increase over single view and reaching 0.8511 AUC overall. These results establish new state-of-the-art benchmarks, providing clear evidence of the advantages of multi-view architectures for mammogram interpretation. Beyond performance, our analysis offers principled insights into model design and transfer learning strategies, contributing to the development of more accurate and reliable breast cancer screening tools. The inference code and trained models are publicly available at https://github.com/dpetrini/multiple-view.

  • 2 authors
·
Mar 25, 2025

Calibrated Confidence Estimation for Tabular Question Answering

Large language models (LLMs) are increasingly deployed for tabular question answering, yet calibration on structured data is largely unstudied. This paper presents the first systematic comparison of five confidence estimation methods across five frontier LLMs and two tabular QA benchmarks. All models are severely overconfident (smooth ECE 0.35-0.64 versus 0.10-0.15 reported for textual QA). A consistent self-evaluation versus perturbation dichotomy replicates across both benchmarks and all four fully-covered models: self-evaluation methods (verbalized, P(True)) achieve AUROC 0.42-0.76, while perturbation methods (semantic entropy, self-consistency, and our Multi-Format Agreement) achieve AUROC 0.78-0.86. Per-model paired bootstrap tests reject the null at p<0.001 after Holm-Bonferroni correction, and a 3-seed check on GPT-4o-mini gives a per-seed standard deviation of only 0.006. The paper proposes Multi-Format Agreement (MFA), which exploits the lossless and deterministic serialization variation unique to structured data (Markdown, HTML, JSON, CSV) to estimate confidence at 20% lower API cost than sampling baselines. MFA reduces ECE by 44-63%, generalizes across all four models on TableBench (mean AUROC 0.80), and combines complementarily with sampling: an MFA + self-consistency ensemble lifts AUROC from 0.74 to 0.82. A secondary contribution, structure-aware recalibration, improves AUROC by +10 percentage points over standard post-hoc methods.

  • 1 authors
·
Apr 13

SigmaMedStat: Temporal Signal Modeling for ICU False Alarm Reduction

Alarm fatigue in intensive care units (ICUs) is a well documented patient safety crisis. Clinical monitors generate 350 or more alarms per patient per day, out of which 72-99% are clinically irrelevant. Staff desensitization to non-actionable alarms increases the risk of missed true emergencies. This paper presents SigmaMedStat, a machine learning system that evaluates the trustworthiness of physiological alarm signals before clinical action is taken. Four approaches were evaluated on the PhysioNet/Computing in Cardiology Challenge 2015 dataset of 498 four-channel ICU alarm recordings. Primary contribution is a temporal modeling framework that splits each 60 second recording into six consecutive 10-second chunks, and this in turn generates Continuous Wavelet Transform (CWT) scalograms per chunk, encodes each chunk with a shared EfficientNet-B0 encoder, and passes the resulting feature sequence to a two-layer Long Short-Term Memory (LSTM) network. Five-fold stratified cross-validation yields a mean AUC of 0.822 +/- 0.016 (95% CI: [0.790,0.853]), compared to 0.641 for a static EfficientNet baseline trained on the full 60-second window. Ablation studies confirm that temporal chunking and multi-channel signal fusion both contribute independently to classification performance. Per-alarm type analysis reveals that Ventricular Flutter is the most accurately classified alarm type (AUC 0.820) while Asystole remains the hardest (AUC 0.722). Error analysis identifies 65 false negatives and 85 high-confidence misclassifications as the primary failure modes. All code and results are publicly available at https://github.com/Arun-K-Ram/sigmamedstat.

  • 1 authors
·
May 27

Offensive Language and Hate Speech Detection for Danish

The presence of offensive language on social media platforms and the implications this poses is becoming a major concern in modern society. Given the enormous amount of content created every day, automatic methods are required to detect and deal with this type of content. Until now, most of the research has focused on solving the problem for the English language, while the problem is multilingual. We construct a Danish dataset containing user-generated comments from Reddit and Facebook. It contains user generated comments from various social media platforms, and to our knowledge, it is the first of its kind. Our dataset is annotated to capture various types and target of offensive language. We develop four automatic classification systems, each designed to work for both the English and the Danish language. In the detection of offensive language in English, the best performing system achieves a macro averaged F1-score of 0.74, and the best performing system for Danish achieves a macro averaged F1-score of 0.70. In the detection of whether or not an offensive post is targeted, the best performing system for English achieves a macro averaged F1-score of 0.62, while the best performing system for Danish achieves a macro averaged F1-score of 0.73. Finally, in the detection of the target type in a targeted offensive post, the best performing system for English achieves a macro averaged F1-score of 0.56, and the best performing system for Danish achieves a macro averaged F1-score of 0.63. Our work for both the English and the Danish language captures the type and targets of offensive language, and present automatic methods for detecting different kinds of offensive language such as hate speech and cyberbullying.

  • 2 authors
·
Aug 13, 2019

A ResNet is All You Need? Modeling A Strong Baseline for Detecting Referable Diabetic Retinopathy in Fundus Images

Deep learning is currently the state-of-the-art for automated detection of referable diabetic retinopathy (DR) from color fundus photographs (CFP). While the general interest is put on improving results through methodological innovations, it is not clear how good these approaches perform compared to standard deep classification models trained with the appropriate settings. In this paper we propose to model a strong baseline for this task based on a simple and standard ResNet-18 architecture. To this end, we built on top of prior art by training the model with a standard preprocessing strategy but using images from several public sources and an empirically calibrated data augmentation setting. To evaluate its performance, we covered multiple clinically relevant perspectives, including image and patient level DR screening, discriminating responses by input quality and DR grade, assessing model uncertainties and analyzing its results in a qualitative manner. With no other methodological innovation than a carefully designed training, our ResNet model achieved an AUC = 0.955 (0.953 - 0.956) on a combined test set of 61007 test images from different public datasets, which is in line or even better than what other more complex deep learning models reported in the literature. Similar AUC values were obtained in 480 images from two separate in-house databases specially prepared for this study, which emphasize its generalization ability. This confirms that standard networks can still be strong baselines for this task if properly trained.

  • 5 authors
·
Oct 6, 2022

Killing two birds with one stone: Can an audio captioning system also be used for audio-text retrieval?

Automated Audio Captioning (AAC) aims to develop systems capable of describing an audio recording using a textual sentence. In contrast, Audio-Text Retrieval (ATR) systems seek to find the best matching audio recording(s) for a given textual query (Text-to-Audio) or vice versa (Audio-to-Text). These tasks require different types of systems: AAC employs a sequence-to-sequence model, while ATR utilizes a ranking model that compares audio and text representations within a shared projection subspace. However, this work investigates the relationship between AAC and ATR by exploring the ATR capabilities of an unmodified AAC system, without fine-tuning for the new task. Our AAC system consists of an audio encoder (ConvNeXt-Tiny) trained on AudioSet for audio tagging, and a transformer decoder responsible for generating sentences. For AAC, it achieves a high SPIDEr-FL score of 0.298 on Clotho and 0.472 on AudioCaps on average. For ATR, we propose using the standard Cross-Entropy loss values obtained for any audio/caption pair. Experimental results on the Clotho and AudioCaps datasets demonstrate decent recall values using this simple approach. For instance, we obtained a Text-to-Audio R@1 value of 0.382 for Au-dioCaps, which is above the current state-of-the-art method without external data. Interestingly, we observe that normalizing the loss values was necessary for Audio-to-Text retrieval.

  • 3 authors
·
Aug 29, 2023

Breast Cancer Diagnosis in Two-View Mammography Using End-to-End Trained EfficientNet-Based Convolutional Network

Some recent studies have described deep convolutional neural networks to diagnose breast cancer in mammograms with similar or even superior performance to that of human experts. One of the best techniques does two transfer learnings: the first uses a model trained on natural images to create a "patch classifier" that categorizes small subimages; the second uses the patch classifier to scan the whole mammogram and create the "single-view whole-image classifier". We propose to make a third transfer learning to obtain a "two-view classifier" to use the two mammographic views: bilateral craniocaudal and mediolateral oblique. We use EfficientNet as the basis of our model. We "end-to-end" train the entire system using CBIS-DDSM dataset. To ensure statistical robustness, we test our system twice using: (a) 5-fold cross validation; and (b) the original training/test division of the dataset. Our technique reached an AUC of 0.9344 using 5-fold cross validation (accuracy, sensitivity and specificity are 85.13% at the equal error rate point of ROC). Using the original dataset division, our technique achieved an AUC of 0.8483, as far as we know the highest reported AUC for this problem, although the subtle differences in the testing conditions of each work do not allow for an accurate comparison. The inference code and model are available at https://github.com/dpetrini/two-views-classifier

  • 6 authors
·
Oct 1, 2021

On-device Computation of Single-lead ECG Parameters for Real-time Remote Cardiac Health Assessment: A Real-world Validation Study

Accurate, continuous out-of-hospital electrocardiogram (ECG) parameter measurement is vital for real-time cardiac health monitoring and telemedicine. On-device computation of single-lead ECG parameters enables timely assessment without reliance on centralized data processing, advancing personalized, ubiquitous cardiac care-yet comprehensive validation across heterogeneous real-world populations remains limited. This study validated the on-device algorithm FeatureDB (https://github.com/PKUDigitalHealth/FeatureDB) using two datasets: HeartVoice-ECG-lite (369 participants with single-lead ECGs annotated by two physicians) and PTB-XL/PTB-XL+ (21,354 patients with 12-lead ECGs and physicians' diagnostic annotations). FeatureDB computed PR, QT, and QTc intervals, with accuracy evaluated against physician annotations via mean absolute error (MAE), correlation analysis, and Bland-Altman analysis. Diagnostic performance for first-degree atrioventricular block (AVBI, PR-based) and long QT syndrome (LQT, QTc-based) was benchmarked against commercial 12-lead systems (12SL, Uni-G) and open-source algorithm Deli, using AUC, accuracy, sensitivity, and specificity. Results showed high concordance with expert annotations (Pearson correlations: 0.836-0.960), MAEs matching inter-observer variability, and minimal bias. AVBI AUC reached 0.787 (12SL: 0.859; Uni-G: 0.812; Deli: 0.501); LQT AUC was 0.684 (12SL: 0.716; Uni-G: 0.605; Deli: 0.569)-comparable to commercial tools and superior to open-source alternatives. FeatureDB delivers physician-level parameter accuracy and commercial-grade abnormality detection via single-lead devices, supporting scalable telemedicine, decentralized cardiac screening, and continuous monitoring in community and outpatient settings.

  • 12 authors
·
Feb 21, 2025

Large-scale Robust Deep AUC Maximization: A New Surrogate Loss and Empirical Studies on Medical Image Classification

Deep AUC Maximization (DAM) is a new paradigm for learning a deep neural network by maximizing the AUC score of the model on a dataset. Most previous works of AUC maximization focus on the perspective of optimization by designing efficient stochastic algorithms, and studies on generalization performance of large-scale DAM on difficult tasks are missing. In this work, we aim to make DAM more practical for interesting real-world applications (e.g., medical image classification). First, we propose a new margin-based min-max surrogate loss function for the AUC score (named as AUC min-max-margin loss or simply AUC margin loss for short). It is more robust than the commonly used AUC square loss, while enjoying the same advantage in terms of large-scale stochastic optimization. Second, we conduct extensive empirical studies of our DAM method on four difficult medical image classification tasks, namely (i) classification of chest x-ray images for identifying many threatening diseases, (ii) classification of images of skin lesions for identifying melanoma, (iii) classification of mammogram for breast cancer screening, and (iv) classification of microscopic images for identifying tumor tissue. Our studies demonstrate that the proposed DAM method improves the performance of optimizing cross-entropy loss by a large margin, and also achieves better performance than optimizing the existing AUC square loss on these medical image classification tasks. Specifically, our DAM method has achieved the 1st place on Stanford CheXpert competition on Aug. 31, 2020. To the best of our knowledge, this is the first work that makes DAM succeed on large-scale medical image datasets. We also conduct extensive ablation studies to demonstrate the advantages of the new AUC margin loss over the AUC square loss on benchmark datasets. The proposed method is implemented in our open-sourced library LibAUC (www.libauc.org).

  • 4 authors
·
Dec 5, 2020

A slice classification neural network for automated classification of axial PET/CT slices from a multi-centric lymphoma dataset

Automated slice classification is clinically relevant since it can be incorporated into medical image segmentation workflows as a preprocessing step that would flag slices with a higher probability of containing tumors, thereby directing physicians attention to the important slices. In this work, we train a ResNet-18 network to classify axial slices of lymphoma PET/CT images (collected from two institutions) depending on whether the slice intercepted a tumor (positive slice) in the 3D image or if the slice did not (negative slice). Various instances of the network were trained on 2D axial datasets created in different ways: (i) slice-level split and (ii) patient-level split; inputs of different types were used: (i) only PET slices and (ii) concatenated PET and CT slices; and different training strategies were employed: (i) center-aware (CAW) and (ii) center-agnostic (CAG). Model performances were compared using the area under the receiver operating characteristic curve (AUROC) and the area under the precision-recall curve (AUPRC), and various binary classification metrics. We observe and describe a performance overestimation in the case of slice-level split as compared to the patient-level split training. The model trained using patient-level split data with the network input containing only PET slices in the CAG training regime was the best performing/generalizing model on a majority of metrics. Our models were additionally more closely compared using the sensitivity metric on the positive slices from their respective test sets.

  • 8 authors
·
Mar 11, 2024

Benchmarking Deep Learning and Statistical Target Detection Methods for PFM-1 Landmine Detection in UAV Hyperspectral Imagery

In recent years, unmanned aerial vehicles (UAVs) equipped with imaging sensors and automated processing algorithms have emerged as a promising tool to accelerate large-area surveys while reducing risk to human operators. Although hyperspectral imaging (HSI) enables material discrimination using spectral signatures, standardized benchmarks for UAV-based landmine detection remain scarce. In this work, we present a systematic benchmark of four classical statistical detection algorithms, including Spectral Angle Mapper (SAM), Matched Filter (MF), Adaptive Cosine Estimator (ACE), and Constrained Energy Minimization (CEM), alongside a proposed lightweight Spectral Neural Network utilizing Parametric Mish activations for PFM-1 landmine detection. We also release pixel-level binary ground truth masks (target/background) to enable standardized, reproducible evaluation. Evaluations were conducted on inert PFM-1 targets across multiple scene crops using a recently released VNIR hyperspectral dataset. Metrics such as receiver operating characteristic (ROC) curve, area under the curve (AUC), precision-recall (PR) curve, and average precision (AP) were used. While all methods achieve high ROC-AUC on an independent test set, the ACE method observes the highest AUC of 0.989. However, because target pixels are extremely sparse relative to background, ROC-AUC alone can be misleading; under precision-focused evaluation (PR and AP), the Spectral-NN outperforms classical detectors, achieving the highest AP. These results emphasize the need for precision-focused evaluation, scene-aware benchmarking, and learning-based spectral models for reliable UAV-based hyperspectral landmine detection. The code and pixel-level annotations will be released.

  • 4 authors
·
Feb 10

A systematic study of the class imbalance problem in convolutional neural networks

In this study, we systematically investigate the impact of class imbalance on classification performance of convolutional neural networks (CNNs) and compare frequently used methods to address the issue. Class imbalance is a common problem that has been comprehensively studied in classical machine learning, yet very limited systematic research is available in the context of deep learning. In our study, we use three benchmark datasets of increasing complexity, MNIST, CIFAR-10 and ImageNet, to investigate the effects of imbalance on classification and perform an extensive comparison of several methods to address the issue: oversampling, undersampling, two-phase training, and thresholding that compensates for prior class probabilities. Our main evaluation metric is area under the receiver operating characteristic curve (ROC AUC) adjusted to multi-class tasks since overall accuracy metric is associated with notable difficulties in the context of imbalanced data. Based on results from our experiments we conclude that (i) the effect of class imbalance on classification performance is detrimental; (ii) the method of addressing class imbalance that emerged as dominant in almost all analyzed scenarios was oversampling; (iii) oversampling should be applied to the level that completely eliminates the imbalance, whereas the optimal undersampling ratio depends on the extent of imbalance; (iv) as opposed to some classical machine learning models, oversampling does not cause overfitting of CNNs; (v) thresholding should be applied to compensate for prior class probabilities when overall number of properly classified cases is of interest.

  • 3 authors
·
Oct 15, 2017

Evaluating Large-Vocabulary Object Detectors: The Devil is in the Details

By design, average precision (AP) for object detection aims to treat all classes independently: AP is computed independently per category and averaged. On one hand, this is desirable as it treats all classes equally. On the other hand, it ignores cross-category confidence calibration, a key property in real-world use cases. Unfortunately, under important conditions (i.e., large vocabulary, high instance counts) the default implementation of AP is neither category independent, nor does it directly reward properly calibrated detectors. In fact, we show that on LVIS the default implementation produces a gameable metric, where a simple, un-intuitive re-ranking policy can improve AP by a large margin. To address these limitations, we introduce two complementary metrics. First, we present a simple fix to the default AP implementation, ensuring that it is independent across categories as originally intended. We benchmark recent LVIS detection advances and find that many reported gains do not translate to improvements under our new evaluation, suggesting recent improvements may arise from difficult to interpret changes to cross-category rankings. Given the importance of reliably benchmarking cross-category rankings, we consider a pooled version of AP (AP-Pool) that rewards properly calibrated detectors by directly comparing cross-category rankings. Finally, we revisit classical approaches for calibration and find that explicitly calibrating detectors improves state-of-the-art on AP-Pool by 1.7 points

  • 5 authors
·
Feb 1, 2021

Predicting sepsis in multi-site, multi-national intensive care cohorts using deep learning

Despite decades of clinical research, sepsis remains a global public health crisis with high mortality, and morbidity. Currently, when sepsis is detected and the underlying pathogen is identified, organ damage may have already progressed to irreversible stages. Effective sepsis management is therefore highly time-sensitive. By systematically analysing trends in the plethora of clinical data available in the intensive care unit (ICU), an early prediction of sepsis could lead to earlier pathogen identification, resistance testing, and effective antibiotic and supportive treatment, and thereby become a life-saving measure. Here, we developed and validated a machine learning (ML) system for the prediction of sepsis in the ICU. Our analysis represents the largest multi-national, multi-centre in-ICU study for sepsis prediction using ML to date. Our dataset contains 156,309 unique ICU admissions, which represent a refined and harmonised subset of five large ICU databases originating from three countries. Using the international consensus definition Sepsis-3, we derived hourly-resolved sepsis label annotations, amounting to 26,734 (17.1%) septic stays. We compared our approach, a deep self-attention model, to several clinical baselines as well as ML baselines and performed an extensive internal and external validation within and across databases. On average, our model was able to predict sepsis with an AUROC of 0.847 pm 0.050 (internal out-of sample validation) and 0.761 pm 0.052 (external validation). For a harmonised prevalence of 17%, at 80% recall our model detects septic patients with 39% precision 3.7 hours in advance.

  • 8 authors
·
Jul 12, 2021

STARS: Skill-Triggered Audit for Request-Conditioned Invocation Safety in Agent Systems

Autonomous language-model agents increasingly rely on installable skills and tools to complete user tasks. Static skill auditing can expose capability surface before deployment, but it cannot determine whether a particular invocation is unsafe under the current user request and runtime context. We therefore study skill invocation auditing as a continuous-risk estimation problem: given a user request, candidate skill, and runtime context, predict a score that supports ranking and triage before a hard intervention is applied. We introduce STARS, which combines a static capability prior, a request-conditioned invocation risk model, and a calibrated risk-fusion policy. To evaluate this setting, we construct SIA-Bench, a benchmark of 3,000 invocation records with group-safe splits, lineage metadata, runtime context, canonical action labels, and derived continuous-risk targets. On a held-out split of indirect prompt injection attacks, calibrated fusion reaches 0.439 high-risk AUPRC, improving over 0.405 for the contextual scorer and 0.380 for the strongest static baseline, while the contextual scorer remains better calibrated with 0.289 expected calibration error. On the locked in-distribution test split, gains are smaller and static priors remain useful. The resulting claim is therefore narrower: request-conditioned auditing is most valuable as an invocation-time risk-scoring and triage layer rather than as a replacement for static screening. Code is available at https://github.com/123zgj123/STARS.

  • 4 authors
·
Apr 10

Representation Before Training: A Fixed-Budget Benchmark for Generative Medical Event Models

Every prediction from a generative medical event model is bounded by how clinical events are tokenized, yet input representation is rarely isolated from other system and architectural choices. We evaluate how representation decisions affect downstream prediction after a shared one-epoch pretraining budget. We train 28 matched transformers on MIMIC-IV and evaluate them on 30 clinical outcomes in three experiments: (1) quantization granularity, reference-range anchoring, and code-value fusion; (2) value encoding (hard bins, soft discretization, code-normalized xVal) crossed with temporal encoding (event order, time tokens, admission-relative RoPE); and (3) native MIMIC laboratory/vital codes versus the Common Longitudinal ICU Format (CLIF)-remapped laboratory/vital codes with compression-preserving perturbation arms. In Experiment 1, fused code-value tokenization improves mortality AUROC from 0.891 to 0.915 (BH-adjusted p < 0.001), hospital length-of-stay AUROC from 0.763 to 0.788 (BH-adjusted p < 0.001), and, for the decile fused-vs-unfused comparison, mean regression Spearman rho across the 13 regression outcomes from 0.414 to 0.494. Across the three temporal encodings, event order only and admission-relative RoPE match or exceed inserting time tokens on average while shortening sequences by 11%. CLIF remapping preserves downstream performance in our single-site setting while yielding a smaller, clinically interpretable token set compatible with multi-site use. Finer-than-decile quantization, reference-range anchoring, and soft discretization help in selective outcomes, while code-normalized xVal remains well below the discrete and soft families, consistent with near-median suppression that persists after the affine variant.

  • 6 authors
·
Apr 17

When No Benchmark Exists: Validating Comparative LLM Safety Scoring Without Ground-Truth Labels

Many deployments must compare candidate language models for safety before a labeled benchmark exists for the relevant language, sector, or regulatory regime. We formalize this setting as benchmarkless comparative safety scoring and specify the contract under which a scenario-based audit can be interpreted as deployment evidence. Scores are valid only under a fixed scenario pack, rubric, auditor, judge, sampling configuration, and rerun budget. Because no labels are available, we replace ground-truth agreement with an instrumental-validity chain: responsiveness to a controlled safe-versus-abliterated contrast, dominance of target-driven variance over auditor and judge artifacts, and stability across reruns. We instantiate the chain in SimpleAudit, a local-first scoring instrument, and validate it on a Norwegian safety pack. Safe and abliterated targets separate with AUROC values between 0.89 and 1.00, target identity is the dominant variance component (η^2 approx 0.52), and severity profiles stabilize by ten reruns. Applying the same chain to Petri shows that it admits both tools. The substantial differences arise upstream of the chain, in claim-contract enforcement and deployment fit. A Norwegian public-sector procurement case comparing Borealis and Gemma 3 demonstrates the resulting evidence in practice: the safer model depends on scenario category and risk measure. Consequently, scores, matched deltas, critical rates, uncertainty, and the auditor and judge used must be reported together rather than collapsed into a single ranking.

MOSAIC: A Multilingual, Taxonomy-Agnostic, and Computationally Efficient Approach for Radiological Report Classification

Radiology reports contain rich clinical information that can be used to train imaging models without relying on costly manual annotation. However, existing approaches face critical limitations: rule-based methods struggle with linguistic variability, supervised models require large annotated datasets, and recent LLM-based systems depend on closed-source or resource-intensive models that are unsuitable for clinical use. Moreover, current solutions are largely restricted to English and single-modality, single-taxonomy datasets. We introduce MOSAIC, a multilingual, taxonomy-agnostic, and computationally efficient approach for radiological report classification. Built on a compact open-access language model (MedGemma-4B), MOSAIC supports both zero-/few-shot prompting and lightweight fine-tuning, enabling deployment on consumer-grade GPUs. We evaluate MOSAIC across seven datasets in English, Spanish, French, and Danish, spanning multiple imaging modalities and label taxonomies. The model achieves a mean macro F1 score of 88 across five chest X-ray datasets, approaching or exceeding expert-level performance, while requiring only 24 GB of GPU memory. With data augmentation, as few as 80 annotated samples are sufficient to reach a weighted F1 score of 82 on Danish reports, compared to 86 with the full 1600-sample training set. MOSAIC offers a practical alternative to large or proprietary LLMs in clinical settings. Code and models are open-source. We invite the community to evaluate and extend MOSAIC on new languages, taxonomies, and modalities.

  • 9 authors
·
Aug 29, 2025

AUPIMO: Redefining Visual Anomaly Detection Benchmarks with High Speed and Low Tolerance

Recent advances in visual anomaly detection research have seen AUROC and AUPRO scores on public benchmark datasets such as MVTec and VisA converge towards perfect recall, giving the impression that these benchmarks are near-solved. However, high AUROC and AUPRO scores do not always reflect qualitative performance, which limits the validity of these metrics in real-world applications. We argue that the artificial ceiling imposed by the lack of an adequate evaluation metric restrains progression of the field, and it is crucial that we revisit the evaluation metrics used to rate our algorithms. In response, we introduce Per-IMage Overlap (PIMO), a novel metric that addresses the shortcomings of AUROC and AUPRO. PIMO retains the recall-based nature of the existing metrics but introduces two distinctions: the assignment of curves (and respective area under the curve) is per-image, and its X-axis relies solely on normal images. Measuring recall per image simplifies instance score indexing and is more robust to noisy annotations. As we show, it also accelerates computation and enables the usage of statistical tests to compare models. By imposing low tolerance for false positives on normal images, PIMO provides an enhanced model validation procedure and highlights performance variations across datasets. Our experiments demonstrate that PIMO offers practical advantages and nuanced performance insights that redefine anomaly detection benchmarks -- notably challenging the perception that MVTec AD and VisA datasets have been solved by contemporary models. Available on GitHub: https://github.com/jpcbertoldo/aupimo.

  • 4 authors
·
Jan 3, 2024

Free Lunch: Robust Cross-Lingual Transfer via Model Checkpoint Averaging

Massively multilingual language models have displayed strong performance in zero-shot (ZS-XLT) and few-shot (FS-XLT) cross-lingual transfer setups, where models fine-tuned on task data in a source language are transferred without any or with only a few annotated instances to the target language(s). However, current work typically overestimates model performance as fine-tuned models are frequently evaluated at model checkpoints that generalize best to validation instances in the target languages. This effectively violates the main assumptions of "true" ZS-XLT and FS-XLT. Such XLT setups require robust methods that do not depend on labeled target language data for validation and model selection. In this work, aiming to improve the robustness of "true" ZS-XLT and FS-XLT, we propose a simple and effective method that averages different checkpoints (i.e., model snapshots) during task fine-tuning. We conduct exhaustive ZS-XLT and FS-XLT experiments across higher-level semantic tasks (NLI, extractive QA) and lower-level token classification tasks (NER, POS). The results indicate that averaging model checkpoints yields systematic and consistent performance gains across diverse target languages in all tasks. Importantly, it simultaneously substantially desensitizes XLT to varying hyperparameter choices in the absence of target language validation. We also show that checkpoint averaging benefits performance when further combined with run averaging (i.e., averaging the parameters of models fine-tuned over independent runs).

  • 3 authors
·
May 26, 2023

MedGemma 1.5 Technical Report

We introduce MedGemma 1.5 4B, the latest model in the MedGemma collection. MedGemma 1.5 expands on MedGemma 1 by integrating additional capabilities: high-dimensional medical imaging (CT/MRI volumes and histopathology whole slide images), anatomical localization via bounding boxes, multi-timepoint chest X-ray analysis, and improved medical document understanding (lab reports, electronic health records). We detail the innovations required to enable these modalities within a single architecture, including new training data, long-context 3D volume slicing, and whole-slide pathology sampling. Compared to MedGemma 1 4B, MedGemma 1.5 4B demonstrates significant gains in these new areas, improving 3D MRI condition classification accuracy by 11% and 3D CT condition classification by 3% (absolute improvements). In whole slide pathology imaging, MedGemma 1.5 4B achieves a 47% macro F1 gain. Additionally, it improves anatomical localization with a 35% increase in Intersection over Union on chest X-rays and achieves a 4% macro accuracy for longitudinal (multi-timepoint) chest x-ray analysis. Beyond its improved multimodal performance over MedGemma 1, MedGemma 1.5 improves on text-based clinical knowledge and reasoning, improving by 5% on MedQA accuracy and 22% on EHRQA accuracy. It also achieves an average of 18% macro F1 on 4 different lab report information extraction datasets (EHR Datasets 2, 3, 4, and Mendeley Clinical Laboratory Test Reports). Taken together, MedGemma 1.5 serves as a robust, open resource for the community, designed as an improved foundation on which developers can create the next generation of medical AI systems. Resources and tutorials for building upon MedGemma 1.5 can be found at https://goo.gle/MedGemma.

  • 42 authors
·
Apr 5 1

MuSc: Zero-Shot Industrial Anomaly Classification and Segmentation with Mutual Scoring of the Unlabeled Images

This paper studies zero-shot anomaly classification (AC) and segmentation (AS) in industrial vision. We reveal that the abundant normal and abnormal cues implicit in unlabeled test images can be exploited for anomaly determination, which is ignored by prior methods. Our key observation is that for the industrial product images, the normal image patches could find a relatively large number of similar patches in other unlabeled images, while the abnormal ones only have a few similar patches. We leverage such a discriminative characteristic to design a novel zero-shot AC/AS method by Mutual Scoring (MuSc) of the unlabeled images, which does not need any training or prompts. Specifically, we perform Local Neighborhood Aggregation with Multiple Degrees (LNAMD) to obtain the patch features that are capable of representing anomalies in varying sizes. Then we propose the Mutual Scoring Mechanism (MSM) to leverage the unlabeled test images to assign the anomaly score to each other. Furthermore, we present an optimization approach named Re-scoring with Constrained Image-level Neighborhood (RsCIN) for image-level anomaly classification to suppress the false positives caused by noises in normal images. The superior performance on the challenging MVTec AD and VisA datasets demonstrates the effectiveness of our approach. Compared with the state-of-the-art zero-shot approaches, MuSc achieves a 21.1% PRO absolute gain (from 72.7% to 93.8%) on MVTec AD, a 19.4% pixel-AP gain and a 14.7% pixel-AUROC gain on VisA. In addition, our zero-shot approach outperforms most of the few-shot approaches and is comparable to some one-class methods. Code is available at https://github.com/xrli-U/MuSc.

  • 4 authors
·
Jan 30, 2024

Out-of-Distribution Detection & Applications With Ablated Learned Temperature Energy

As deep neural networks become adopted in high-stakes domains, it is crucial to be able to identify when inference inputs are Out-of-Distribution (OOD) so that users can be alerted of likely drops in performance and calibration despite high confidence. Among many others, existing methods use the following two scores to do so without training on any apriori OOD examples: a learned temperature and an energy score. In this paper we introduce Ablated Learned Temperature Energy (or "AbeT" for short), a method which combines these prior methods in novel ways with effective modifications. Due to these contributions, AbeT lowers the False Positive Rate at 95% True Positive Rate (FPR@95) by 35.39% in classification (averaged across all ID and OOD datasets measured) compared to state of the art without training networks in multiple stages or requiring hyperparameters or test-time backward passes. We additionally provide empirical insights as to how our model learns to distinguish between In-Distribution (ID) and OOD samples while only being explicitly trained on ID samples via exposure to misclassified ID examples at training time. Lastly, we show the efficacy of our method in identifying predicted bounding boxes and pixels corresponding to OOD objects in object detection and semantic segmentation, respectively - with an AUROC increase of 5.15% in object detection and both a decrease in FPR@95 of 41.48% and an increase in AUPRC of 34.20% on average in semantic segmentation compared to previous state of the art.

  • 6 authors
·
Jan 22, 2024

Pillar-0: A New Frontier for Radiology Foundation Models

Radiology plays an integral role in modern medicine, yet rising imaging volumes have far outpaced workforce growth. Foundation models offer a path toward assisting with the full spectrum of radiology tasks, but existing medical models remain limited: they process volumetric CT and MRI as low-fidelity 2D slices, discard critical grayscale contrast information, and lack evaluation frameworks that reflect real clinical practice. We introduce Pillar-0, a radiology foundation model pretrained on 42,990 abdomen-pelvis CTs, 86,411 chest CTs, 14,348 head CTs, and 11,543 breast MRIs from a large academic center, together with RATE, a scalable framework that extracts structured labels for 366 radiologic findings with near-perfect accuracy using LLMs. Across internal test sets of 14,230 abdomen-pelvis CTs, 10,646 chest CTs, 4,906 head CTs, and 1,585 breast MRIs, Pillar-0 establishes a new performance frontier, achieving mean AUROCs of 86.4, 88.0, 90.1, and 82.9, outperforming MedGemma (Google), MedImageInsight (Microsoft), Lingshu (Alibaba), and Merlin (Stanford) by 7.8-15.8 AUROC points and ranking best in 87.2\% (319/366) tasks. Pillar-0 similarly outperforms all baselines in an external validation on the Stanford Abdominal CT dataset, including Merlin (82.2 vs 80.6 AUROC). Pillar-0 extends to tasks beyond its pretraining, such as long-horizon lung cancer risk prediction, where it improves upon the state-of-the-art Sybil by 3.0 C-index points on NLST, and generalizes with gains of 5.9 (MGH) and 1.9 (CGMH). In brain hemorrhage detection, Pillar-0 obtained a >95 AUROC when using only 1/20th of the data of the next most sample efficient baseline. Pillar-0 and RATE together provide an open, clinically rigorous foundation for building high-performance radiology systems, enabling applications that were previously infeasible due to computational, data, and evaluation constraints.

YalaLab Yala Lab
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Nov 21, 2025 2

Automated Rubrics for Reliable Evaluation of Medical Dialogue Systems

Large Language Models (LLMs) are increasingly used for clinical decision support, where hallucinations and unsafe suggestions may pose direct risks to patient safety. These risks are particularly challenging as they often manifest as subtle clinical errors that evade detection by generic metrics, while expert-authored fine-grained rubrics remain costly to construct and difficult to scale. In this paper, we propose a retrieval-augmented multi-agent framework designed to automate the generation of instance-specific evaluation rubrics. Our approach grounds evaluation in authoritative medical evidence by decomposing retrieved content into atomic facts and synthesizing them with user interaction constraints to form verifiable, fine-grained evaluation criteria. Evaluated on HealthBench, our framework achieves a Clinical Intent Alignment (CIA) score of 60.12%, a statistically significant improvement over the GPT-4o baseline (55.16%). In discriminative tests, our rubrics yield a mean score delta (μ_Δ = 8.658) and an AUROC of 0.977, nearly doubling the quality separation achieved by GPT-4o baseline (4.972). Beyond evaluation, our rubrics effectively guide response refinement, improving quality by 9.2% (from 59.0% to 68.2%). This provides a scalable and transparent foundation for both evaluating and improving medical LLMs. The code is available at https://anonymous.4open.science/r/Automated-Rubric-Generation-AF3C/.

  • 4 authors
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Jan 21

MAC: A Conversion Rate Prediction Benchmark Featuring Labels Under Multiple Attribution Mechanisms

Multi-attribution learning (MAL), which enhances model performance by learning from conversion labels yielded by multiple attribution mechanisms, has emerged as a promising learning paradigm for conversion rate (CVR) prediction. However, the conversion labels in public CVR datasets are generated by a single attribution mechanism, hindering the development of MAL approaches. To address this data gap, we establish the Multi-Attribution Benchmark (MAC), the first public CVR dataset featuring labels from multiple attribution mechanisms. Besides, to promote reproducible research on MAL, we develop PyMAL, an open-source library covering a wide array of baseline methods. We conduct comprehensive experimental analyses on MAC and reveal three key insights: (1) MAL brings consistent performance gains across different attribution settings, especially for users featuring long conversion paths. (2) The performance growth scales up with objective complexity in most settings; however, when predicting first-click conversion targets, simply adding auxiliary objectives is counterproductive, underscoring the necessity of careful selection of auxiliary objectives. (3) Two architectural design principles are paramount: first, to fully learn the multi-attribution knowledge, and second, to fully leverage this knowledge to serve the main task. Motivated by these findings, we propose Mixture of Asymmetric Experts (MoAE), an effective MAL approach incorporating multi-attribution knowledge learning and main task-centric knowledge utilization. Experiments on MAC show that MoAE substantially surpasses the existing state-of-the-art MAL method. We believe that our benchmark and insights will foster future research in the MAL field. Our MAC benchmark and the PyMAL algorithm library are publicly available at https://github.com/alimama-tech/PyMAL.

  • 12 authors
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Mar 1

Uncertainty quantification for improving radiomic-based models in radiation pneumonitis prediction

Background and Objective: Radiation pneumonitis (RP) is a side effect of thoracic radiation therapy. Recently, Machine learning (ML) models enhanced with radiomic and dosiomic features provide better predictions by incorporating spatial information beyond DVHs. However, to improve the clinical decision process, we propose to use uncertainty quantification (UQ) to improve the confidence in model prediction. This study evaluates the impact of post hoc UQ methods on the discriminative performance and calibration of ML models for RP prediction. Methods: This study evaluated four ML models: logistic regression (LR), support vector machines (SVM), extreme gradient boosting (XGB), and random forest (RF), using radiomic, dosiomic, and dosimetric features to predict RP. We applied UQ methods, including Patt scaling, isotonic regression, Venn-ABERS predictor, and Conformal Prediction, to quantify uncertainty. Model performance was assessed through Area Under the Receiver Operating Characteristic curve (AUROC), Area Under the Precision-Recall Curve (AUPRC), and Adaptive Calibration Error (ACE) using Leave-One-Out Cross-Validation (LOO-CV). Results: UQ methods enhanced predictive performance, particularly for high-certainty predictions, while also improving calibration. Radiomic and dosiomic features increased model accuracy but introduced calibration challenges, especially for non-linear models like XGB and RF. Performance gains from UQ methods were most noticeable at higher certainty thresholds. Conclusion: Integrating UQ into ML models with radiomic and dosiomic features improves both predictive accuracy and calibration, supporting more reliable clinical decision-making. The findings emphasize the value of UQ methods in enhancing applicability of predictive models for RP in healthcare settings.

  • 3 authors
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Dec 27, 2024

Modeling PROTAC Degradation Activity with Machine Learning

PROTACs are a promising therapeutic modality that harnesses the cell's built-in degradation machinery to degrade specific proteins. Despite their potential, developing new PROTACs is challenging and requires significant domain expertise, time, and cost. Meanwhile, machine learning has transformed drug design and development. In this work, we present a strategy for curating open-source PROTAC data and an open-source deep learning tool for predicting the degradation activity of novel PROTAC molecules. The curated dataset incorporates important information such as pDC_{50}, D_{max}, E3 ligase type, POI amino acid sequence, and experimental cell type. Our model architecture leverages learned embeddings from pretrained machine learning models, in particular for encoding protein sequences and cell type information. We assessed the quality of the curated data and the generalization ability of our model architecture against new PROTACs and targets via three tailored studies, which we recommend other researchers to use in evaluating their degradation activity models. In each study, three models predict protein degradation in a majority vote setting, reaching a top test accuracy of 82.6% and 0.848 ROC AUC, and a test accuracy of 61% and 0.615 ROC AUC when generalizing to novel protein targets. Our results are not only comparable to state-of-the-art models for protein degradation prediction, but also part of an open-source implementation which is easily reproducible and less computationally complex than existing approaches.

  • 4 authors
·
Jun 4, 2024

Better May Not Be Fairer: A Study on Subgroup Discrepancy in Image Classification

In this paper, we provide 20,000 non-trivial human annotations on popular datasets as a first step to bridge gap to studying how natural semantic spurious features affect image classification, as prior works often study datasets mixing low-level features due to limitations in accessing realistic datasets. We investigate how natural background colors play a role as spurious features by annotating the test sets of CIFAR10 and CIFAR100 into subgroups based on the background color of each image. We name our datasets CIFAR10-B and CIFAR100-B and integrate them with CIFAR-Cs. We find that overall human-level accuracy does not guarantee consistent subgroup performances, and the phenomenon remains even on models pre-trained on ImageNet or after data augmentation (DA). To alleviate this issue, we propose FlowAug, a semantic DA that leverages decoupled semantic representations captured by a pre-trained generative flow. Experimental results show that FlowAug achieves more consistent subgroup results than other types of DA methods on CIFAR10/100 and on CIFAR10/100-C. Additionally, it shows better generalization performance. Furthermore, we propose a generic metric, MacroStd, for studying model robustness to spurious correlations, where we take a macro average on the weighted standard deviations across different classes. We show MacroStd being more predictive of better performances; per our metric, FlowAug demonstrates improvements on subgroup discrepancy. Although this metric is proposed to study our curated datasets, it applies to all datasets that have subgroups or subclasses. Lastly, we also show superior out-of-distribution results on CIFAR10.1.

  • 3 authors
·
Dec 16, 2022

Enhancing clinical decision support with physiological waveforms -- a multimodal benchmark in emergency care

Background: AI-driven prediction algorithms have the potential to enhance emergency medicine by enabling rapid and accurate decision-making regarding patient status and potential deterioration. However, the integration of multimodal data, including raw waveform signals, remains underexplored in clinical decision support. Methods: We present a dataset and benchmarking protocol designed to advance multimodal decision support in emergency care. Our models utilize demographics, biometrics, vital signs, laboratory values, and electrocardiogram (ECG) waveforms as inputs to predict both discharge diagnoses and patient deterioration. Results: The diagnostic model achieves area under the receiver operating curve (AUROC) scores above 0.8 for 609 out of 1,428 conditions, covering both cardiac (e.g., myocardial infarction) and non-cardiac (e.g., renal disease, diabetes) diagnoses. The deterioration model attains AUROC scores above 0.8 for 14 out of 15 targets, accurately predicting critical events such as cardiac arrest, mechanical ventilation, ICU admission, and mortality. Conclusions: Our study highlights the positive impact of incorporating raw waveform data into decision support models, improving predictive performance. By introducing a unique, publicly available dataset and baseline models, we provide a foundation for measurable progress in AI-driven decision support for emergency care.

  • 3 authors
·
Apr 29, 2025

Explainable Multi-Modal Deep Learning for Automatic Detection of Lung Diseases from Respiratory Audio Signals

Respiratory diseases remain major global health challenges, and traditional auscultation is often limited by subjectivity, environmental noise, and inter-clinician variability. This study presents an explainable multimodal deep learning framework for automatic lung-disease detection using respiratory audio signals. The proposed system integrates two complementary representations: a spectral-temporal encoder based on a CNN-BiLSTM Attention architecture, and a handcrafted acoustic-feature encoder capturing physiologically meaningful descriptors such as MFCCs, spectral centroid, spectral bandwidth, and zero-crossing rate. These branches are combined through late-stage fusion to leverage both data-driven learning and domain-informed acoustic cues. The model is trained and evaluated on the Asthma Detection Dataset Version 2 using rigorous preprocessing, including resampling, normalization, noise filtering, data augmentation, and patient-level stratified partitioning. The study achieved strong generalization with 91.21% accuracy, 0.899 macro F1-score, and 0.9866 macro ROC-AUC, outperforming all ablated variants. An ablation study confirms the importance of temporal modeling, attention mechanisms, and multimodal fusion. The framework incorporates Grad-CAM, Integrated Gradients, and SHAP, generating interpretable spectral, temporal, and feature-level explanations aligned with known acoustic biomarkers to build clinical transparency. The findings demonstrate the framework's potential for telemedicine, point-of-care diagnostics, and real-world respiratory screening.

  • 4 authors
·
Nov 29, 2025

Pressure-Testing Deception Probes in LLMs: Scaling, Robustness, and the Geometry of Deceptive Representations

Linear probes trained on LLM activations are increasingly proposed as deception-detection metrics, yet report AUROC exceeding 0.96 on clean benchmarks while collapsing under distributional shift. This paper systematically pressure-tests probe-based metrics across the Gemma 3 model family (1B-27B parameters), diagnosing why they fail rather than merely documenting that they fail. We test four hypotheses about deception encoding: (1) single linear direction, (2) multi-dimensional subspace, (3) convex conic hull, (4) entropy proxy. Our design includes cross-domain transfer matrices, multi-dimensional probe analysis with permutation null baselines, entropy-residualization tests, and distractor evaluations across 8 stylistic shifts. We find that: (a) probes achieve near-perfect AUROC (>=0.998) on clean data but collapse under stylistic shifts; style-augmented probes recover near-perfect detection (mean AUROC 0.979-0.983) on unseen styles; (b) the single-direction hypothesis is rejected (k=1 captures only 0.61-0.80 AUROC), with cross-domain transfer failure confirmed as geometric rather than layer-mismatch-driven; (c) the entropy-proxy hypothesis is rejected (max |rho|=0.454, max Delta-AUROC after residualization=0.004); and (d) deception does not form a significant linear subspace (per-domain k*=0), yet multi-dimensional probes (k>=5) recover the signal through distributed sub-threshold features. Probe fragility reflects distributional narrowness rather than an architectural limitation: style-augmented probes recover near-perfect detection at both 4B and 27B, establishing that the inverse scaling pattern is a training-distribution artifact rather than a genuine scale-dependent phenomenon.

  • 1 authors
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May 27 2

Muon: Training and Trade-offs with Latent Attention and MoE

We present a comprehensive theoretical and empirical study of the Muon optimizer for training transformers only with a small to medium decoder (30M - 200M parameters), with an emphasis on its mathematical foundations, convergence properties and synergistic interactions with modern architectural optimizations. Building on recent work showing Muon's scalability, we provide rigorous theoretical analysis including: (i)showing the convergence rate under standard assumptions, (ii) spectral regularization properties that prevent gradient explosion, (iii) connection to natural gradient descent on the Stiefel manifold, and (iv) equivalence to steepest gradient descent under the spectral norm. Crucially, we demonstrate that Muon expands the Pareto frontier in the compute-time trade-off by maintaining superior data efficiency at large batch sizes, a key finding of~essentialai2025muon that we validate across our model scales. Empirically, Muon reaches the target loss with 48-52\% of the training calculated by AdamW while maintaining or improving the final perplexity, consistent with larger-scale results. When combined with Multi-Head Latent Attention (MLA) and Mixture-of-Experts (MoE), we observe multiplicative efficiency gains: MLA+MoE+Muon achieves 68\% memory reduction and 3.2times inference speedup, while improving perplexity by 8-12\%. We provide detailed procedures on 15 architectural and optimizer components, stability analyzes across 100+ training runs, and practical implementation guidelines including Newton-Schulz coefficients (3.4445, -4.7750, 2.0315) optimized by~su2024muonblog. Our theoretical analysis and comprehensive experiments establish Muon as a principled, robust alternative to AdamW that particularly excels when combined with modern efficiency techniques and large-batch training regimes.

  • 4 authors
·
Sep 29, 2025

Social-Implicit: Rethinking Trajectory Prediction Evaluation and The Effectiveness of Implicit Maximum Likelihood Estimation

Best-of-N (BoN) Average Displacement Error (ADE)/ Final Displacement Error (FDE) is the most used metric for evaluating trajectory prediction models. Yet, the BoN does not quantify the whole generated samples, resulting in an incomplete view of the model's prediction quality and performance. We propose a new metric, Average Mahalanobis Distance (AMD) to tackle this issue. AMD is a metric that quantifies how close the whole generated samples are to the ground truth. We also introduce the Average Maximum Eigenvalue (AMV) metric that quantifies the overall spread of the predictions. Our metrics are validated empirically by showing that the ADE/FDE is not sensitive to distribution shifts, giving a biased sense of accuracy, unlike the AMD/AMV metrics. We introduce the usage of Implicit Maximum Likelihood Estimation (IMLE) as a replacement for traditional generative models to train our model, Social-Implicit. IMLE training mechanism aligns with AMD/AMV objective of predicting trajectories that are close to the ground truth with a tight spread. Social-Implicit is a memory efficient deep model with only 5.8K parameters that runs in real time of about 580Hz and achieves competitive results. Interactive demo of the problem can be seen at https://www.abduallahmohamed.com/social-implicit-amdamv-adefde-demo . Code is available at https://github.com/abduallahmohamed/Social-Implicit .

  • 5 authors
·
Mar 6, 2022

AWARE-NET: Adaptive Weighted Averaging for Robust Ensemble Network in Deepfake Detection

Deepfake detection has become increasingly important due to the rise of synthetic media, which poses significant risks to digital identity and cyber presence for security and trust. While multiple approaches have improved detection accuracy, challenges remain in achieving consistent performance across diverse datasets and manipulation types. In response, we propose a novel two-tier ensemble framework for deepfake detection based on deep learning that hierarchically combines multiple instances of three state-of-the-art architectures: Xception, Res2Net101, and EfficientNet-B7. Our framework employs a unique approach where each architecture is instantiated three times with different initializations to enhance model diversity, followed by a learnable weighting mechanism that dynamically combines their predictions. Unlike traditional fixed-weight ensembles, our first-tier averages predictions within each architecture family to reduce model variance, while the second tier learns optimal contribution weights through backpropagation, automatically adjusting each architecture's influence based on their detection reliability. Our experiments achieved state-of-the-art intra-dataset performance with AUC scores of 99.22% (FF++) and 100.00% (CelebDF-v2), and F1 scores of 98.06% (FF++) and 99.94% (CelebDF-v2) without augmentation. With augmentation, we achieve AUC scores of 99.47% (FF++) and 100.00% (CelebDF-v2), and F1 scores of 98.43% (FF++) and 99.95% (CelebDF-v2). The framework demonstrates robust cross-dataset generalization, achieving AUC scores of 88.20% and 72.52%, and F1 scores of 93.16% and 80.62% in cross-dataset evaluations.

  • 6 authors
·
May 1, 2025

Disposition Distillation at Small Scale: A Three-Arc Negative Result

We set out to train behavioral dispositions (self-verification, uncertainty acknowledgment, feedback integration) into small language models (0.6B to 2.3B effective parameters) through a four-stage all-MIT distillation pipeline, with follow-on experiments on inference-time attention-head interventions and a frozen-base confidence-gated sidecar. An internal draft reported +33.9-point MCAS and +15.3-point HumanEval gains on a Qwen3-0.6B student; a second-pass sanity check falsified both numbers before publication. The HumanEval delta was a truncation artifact (n_predict=512) that inverted to -8.0 points at n_predict=1024; the MCAS gain disappeared under apples-to-apples scoring. That falsification triggered three subsequent arcs. Across (1) SFT/DPO LoRA on three model families and two domains, (2) inference-time attention-head tempering on o_proj, and (3) a training-free frozen-base sidecar reading the final-token hidden state h_last, we find no operator that moves judge-measured disposition without damaging content or collapsing into stylistic mimicry. The failure is consistent across five models (Qwen3-0.6B, Qwen3-1.7B, Qwen3.5-0.8B, Gemma 4 E2B, and SmolLM2-1.7B-Instruct). A within-distribution cross-validation pass (AUC=0.683) collapsed to chance on fresh prompts (AUC=0.516). We contribute a three-arc negative result with mechanism, a two-failure-mode taxonomy for linear h_last probes, and an honest falsification pipeline that converts the class of false positives we ourselves produced into publishable negatives. As an independent finding, Gemma 4 E2B exhibits near-complete confidence-correctness decoupling on the Chef domain (assertion asymmetry -0.009; the model asserts at 91% regardless of correctness).

Tinman-Lab Tinman Lab SL
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Apr 12

Deep Multimodal Fusion for Surgical Feedback Classification

Quantification of real-time informal feedback delivered by an experienced surgeon to a trainee during surgery is important for skill improvements in surgical training. Such feedback in the live operating room is inherently multimodal, consisting of verbal conversations (e.g., questions and answers) as well as non-verbal elements (e.g., through visual cues like pointing to anatomic elements). In this work, we leverage a clinically-validated five-category classification of surgical feedback: "Anatomic", "Technical", "Procedural", "Praise" and "Visual Aid". We then develop a multi-label machine learning model to classify these five categories of surgical feedback from inputs of text, audio, and video modalities. The ultimate goal of our work is to help automate the annotation of real-time contextual surgical feedback at scale. Our automated classification of surgical feedback achieves AUCs ranging from 71.5 to 77.6 with the fusion improving performance by 3.1%. We also show that high-quality manual transcriptions of feedback audio from experts improve AUCs to between 76.5 and 96.2, which demonstrates a clear path toward future improvements. Empirically, we find that the Staged training strategy, with first pre-training each modality separately and then training them jointly, is more effective than training different modalities altogether. We also present intuitive findings on the importance of modalities for different feedback categories. This work offers an important first look at the feasibility of automated classification of real-world live surgical feedback based on text, audio, and video modalities.

  • 8 authors
·
Dec 5, 2023

Cross-Shaped Windows Transformer with Self-supervised Pretraining for Clinically Significant Prostate Cancer Detection in Bi-parametric MRI

Multiparametric magnetic resonance imaging (mpMRI) has demonstrated promising results in prostate cancer (PCa) detection using deep convolutional neural networks (CNNs). Recently, transformers have achieved competitive performance compared to CNNs in computer vision. Large-scale transformers need abundant annotated data for training, which are difficult to obtain in medical imaging. Self-supervised learning can effectively leverage unlabeled data to extract useful semantic representations without annotation and its associated costs. This can improve model performance on downstream tasks with limited labelled data and increase generalizability. We introduce a novel end-to-end Cross-Shaped windows (CSwin) transformer UNet model, CSwin UNet, to detect clinically significant prostate cancer (csPCa) in prostate bi-parametric MR imaging (bpMRI) and demonstrate the effectiveness of our proposed self-supervised pre-training framework. Using a large prostate bpMRI dataset with 1500 patients, we first pre-train CSwin transformer using multi-task self-supervised learning to improve data-efficiency and network generalizability. We then finetuned using lesion annotations to perform csPCa detection. Five-fold cross validation shows that self-supervised CSwin UNet achieves 0.888 AUC and 0.545 Average Precision (AP), significantly outperforming four state-of-the-art models (Swin UNETR, DynUNet, Attention UNet, UNet). Using a separate bpMRI dataset with 158 patients, we evaluated our model robustness to external hold-out data. Self-supervised CSwin UNet achieves 0.79 AUC and 0.45 AP, still outperforming all other comparable methods and demonstrating generalization to a dataset shift.

  • 11 authors
·
Apr 30, 2023

End-To-End Prediction of Knee Osteoarthritis Progression With Multi-Modal Transformers

Knee Osteoarthritis (KOA) is a highly prevalent chronic musculoskeletal condition with no currently available treatment. The manifestation of KOA is heterogeneous and prediction of its progression is challenging. Current literature suggests that the use of multi-modal data and advanced modeling methods, such as the ones based on Deep Learning, has promise in tackling this challenge. To date, however, the evidence on the efficacy of this approach is limited. In this study, we leveraged recent advances in Deep Learning and, using a Transformer approach, developed a unified framework for the multi-modal fusion of knee imaging data. Subsequently, we analyzed its performance across a range of scenarios by investigating multiple progression horizons -- from short-term to long-term. We report our findings using a large cohort (n=2421-3967) derived from the Osteoarthritis Initiative dataset. We show that structural knee MRI allows identifying radiographic KOA progressors on par with multi-modal fusion approaches, achieving an area under the ROC curve (ROC AUC) of 0.70-0.76 and Average Precision (AP) of 0.15-0.54 in 2-8 year horizons. Progression within 1 year was better predicted with a multi-modal method using X-ray, structural, and compositional MR images -- ROC AUC of 0.76(0.04), AP of 0.13(0.04) -- or via clinical data. Our follow-up analysis generally shows that prediction from the imaging data is more accurate for post-traumatic subjects, and we further investigate which subject subgroups may benefit the most. The present study provides novel insights into multi-modal imaging of KOA and brings a unified data-driven framework for studying its progression in an end-to-end manner, providing new tools for the design of more efficient clinical trials. The source code of our framework and the pre-trained models are made publicly available.

  • 4 authors
·
Jul 3, 2023

Zero-Shot ECG Classification with Multimodal Learning and Test-time Clinical Knowledge Enhancement

Electrocardiograms (ECGs) are non-invasive diagnostic tools crucial for detecting cardiac arrhythmic diseases in clinical practice. While ECG Self-supervised Learning (eSSL) methods show promise in representation learning from unannotated ECG data, they often overlook the clinical knowledge that can be found in reports. This oversight and the requirement for annotated samples for downstream tasks limit eSSL's versatility. In this work, we address these issues with the Multimodal ECG Representation Learning (MERL}) framework. Through multimodal learning on ECG records and associated reports, MERL is capable of performing zero-shot ECG classification with text prompts, eliminating the need for training data in downstream tasks. At test time, we propose the Clinical Knowledge Enhanced Prompt Engineering (CKEPE) approach, which uses Large Language Models (LLMs) to exploit external expert-verified clinical knowledge databases, generating more descriptive prompts and reducing hallucinations in LLM-generated content to boost zero-shot classification. Based on MERL, we perform the first benchmark across six public ECG datasets, showing the superior performance of MERL compared against eSSL methods. Notably, MERL achieves an average AUC score of 75.2% in zero-shot classification (without training data), 3.2% higher than linear probed eSSL methods with 10\% annotated training data, averaged across all six datasets. Code and models are available at https://github.com/cheliu-computation/MERL

  • 6 authors
·
Mar 11, 2024

Cell nuclei classification in histopathological images using hybrid OLConvNet

Computer-aided histopathological image analysis for cancer detection is a major research challenge in the medical domain. Automatic detection and classification of nuclei for cancer diagnosis impose a lot of challenges in developing state of the art algorithms due to the heterogeneity of cell nuclei and data set variability. Recently, a multitude of classification algorithms has used complex deep learning models for their dataset. However, most of these methods are rigid and their architectural arrangement suffers from inflexibility and non-interpretability. In this research article, we have proposed a hybrid and flexible deep learning architecture OLConvNet that integrates the interpretability of traditional object-level features and generalization of deep learning features by using a shallower Convolutional Neural Network (CNN) named as CNN_{3L}. CNN_{3L} reduces the training time by training fewer parameters and hence eliminating space constraints imposed by deeper algorithms. We used F1-score and multiclass Area Under the Curve (AUC) performance parameters to compare the results. To further strengthen the viability of our architectural approach, we tested our proposed methodology with state of the art deep learning architectures AlexNet, VGG16, VGG19, ResNet50, InceptionV3, and DenseNet121 as backbone networks. After a comprehensive analysis of classification results from all four architectures, we observed that our proposed model works well and perform better than contemporary complex algorithms.

  • 2 authors
·
Feb 21, 2022

The Mini-SiTian Array: real-bogus classification using deep learning

The Mini-SiTian (MST) project is a pathfinder for China's next-generation large-scale time-domain survey, SiTian, aimed at discovering variable stars, transients, and explosive events. MST generates hundreds of thousands of transient alerts every night, approximately 99\% of which are false alarms, posing a significant challenge to its scientific goals. To mitigate the impact of false positives, we propose a deep learning-based solution and systematically evaluate thirteen convolutional neural networks. The results show that ResNet achieves exceptional specificity (99.70\%), EfficientNet achieves the highest recall rate (98.68\%), and DenseNet provides balanced performance with a recall rate of 94.55\% and specificity of 98.66\%. Leveraging these complementary strengths, we developed a bagging-based ensemble classifier that integrates ResNet18, DenseNet121, and EfficientNet\_B0 using a soft voting strategy. This classifier achieved the best AUC value (0.9961) among all models, with a recall rate of 95.37\% and specificity of 99.25\%. It has now been successfully deployed in the MST real-time data processing pipeline. Validation using 5,000 practically processed samples with a classification threshold of 0.798 showed that the classifier achieved 88.31\% accuracy, 91.89\% recall rate, and 99.82\% specificity, confirming its effectiveness and robustness under real application conditions.

  • 5 authors
·
Apr 2, 2025

DOCFORGE-BENCH: A Comprehensive 0-shot Benchmark for Document Forgery Detection and Analysis

We present DOCFORGE-BENCH, the first unified zero-shot benchmark for document forgery detection, evaluating 14 methods across eight datasets spanning text tampering, receipt forgery, and identity document manipulation. Unlike fine-tuning-oriented evaluations such as ForensicHub [Du et al., 2025], DOCFORGE-BENCH applies all methods with their published pretrained weights and no domain adaptation -- a deliberate design choice that reflects the realistic deployment scenario where practitioners lack labeled document training data. Our central finding is a pervasive calibration failure invisible under single-threshold protocols: methods achieve moderate Pixel-AUC (>=0.76) yet near-zero Pixel-F1. This AUC-F1 gap is not a discrimination failure but a score-distribution shift: tampered regions occupy only 0.27-4.17% of pixels in document images -- an order of magnitude less than in natural image benchmarks -- making the standard tau=0.5 threshold catastrophically miscalibrated. Oracle-F1 is 2-10x higher than fixed-threshold Pixel-F1, confirming that calibration, not representation, is the bottleneck. A controlled calibration experiment validates this: adapting a single threshold on N=10 domain images recovers 39-55% of the Oracle-F1 gap, demonstrating that threshold adaptation -- not retraining -- is the key missing step for practical deployment. Overall, no evaluated method works reliably out-of-the-box on diverse document types, underscoring that document forgery detection remains an unsolved problem. We further note that all eight datasets predate the era of generative AI editing; benchmarks covering diffusion- and LLM-based document forgeries represent a critical open gap on the modern attack surface.

  • 10 authors
·
Mar 9

A protocol for evaluating robustness to H&E staining variation in computational pathology models

Sensitivity to staining variation remains a major barrier to deploying computational pathology (CPath) models as hematoxylin and eosin (H&E) staining varies across laboratories, requiring systematic assessment of how this variability affects model prediction. In this work, we developed a three-step protocol for evaluating robustness to H&E staining variation in CPath models. Step 1: Select reference staining conditions, Step 2: Characterize test set staining properties, Step 3: Apply CPath model(s) under simulated reference staining conditions. Here, we first created a new reference staining library based on the PLISM dataset. As an exemplary use case, we applied the protocol to assess the robustness properties of 306 microsatellite instability (MSI) classification models on the unseen SurGen colorectal cancer dataset (n=738), including 300 attention-based multiple instance learning models trained on the TCGA-COAD/READ datasets across three feature extractors (UNI2-h, H-Optimus-1, Virchow2), alongside six public MSI classification models. Classification performance was measured as AUC, and robustness as the min-max AUC range across four simulated staining conditions (low/high H&E intensity, low/high H&E color similarity). Across models and staining conditions, classification performance ranged from AUC 0.769-0.911 (Δ = 0.142). Robustness ranged from 0.007-0.079 (Δ = 0.072), and showed a weak inverse correlation with classification performance (Pearson r=-0.22, 95% CI [-0.34, -0.11]). Thus, we show that the proposed evaluation protocol enables robustness-informed CPath model selection and provides insight into performance shifts across H&E staining conditions, supporting the identification of operational ranges for reliable model deployment. Code is available at https://github.com/CTPLab/staining-robustness-evaluation .

  • 8 authors
·
Mar 13

Bag of Dims: Training-Free Mechanistic Interpretability via Dimension-Level Sign Patterns

We show the standard basis of transformer hidden states already provides a training-free, architecture-general feature basis. Individual dimensions encode semantic content via their signs (+/-1) and confidence via their magnitudes, acting as independent binary registers; a feature is a subset of dimensions with a consistent sign pattern, read by counting sign agreements with no learned rotation. We validate this Bag of Dims framework across seven models spanning language (Qwen 3.5-4B, Gemma 3-4B, Mistral 7B, Qwen3-32B), vision (DINOv2, ViT-Base), and audio (AST). Signs alone carry predictive content: unit-magnitude sign patterns preserve 60-93% top-5 next-token accuracy through the LM head, and decoder-free Hamming scoring reaches 80-90% top-4096. From a single-token cache (one forward pass per token, no context, no labels), we detect 175 categories at AUC 0.97-0.99 by sign agreement; a trained probe adds only +0.018 AUC and converges to axis-aligned weights. These features are causally operative: they survive the K/V attention projections, trace to the FFN neuron coalitions that write them (random-weight controls never reproduce this), and flipping a feature's signs during the live forward pass suppresses its concept across four language models, magnitude-matched and concept-specific. Dimensions stay independent throughout (pairwise mutual information below 0.006 bits). The structure is not specific to language: the same per-dimension signs appear in self-supervised vision (DINOv2, 9/12 ImageNet superclasses), supervised vision (ViT-Base, 11/12), and audio (AST, 50/50 ESC-50 categories), so it reflects transformer training in general, not the language-modeling objective. The standard basis already suffices for feature reading at one forward pass, no optimization, no GPU-days. The open problem shifts from finding the right rotation to cataloging what each dimension encodes.

  • 1 authors
·
Jun 16 2

Optimizing What Matters: AUC-Driven Learning for Robust Neural Retrieval

Dual-encoder retrievers depend on the principle that relevant documents should score higher than irrelevant ones for a given query. Yet the dominant Noise Contrastive Estimation (NCE) objective, which underpins Contrastive Loss, optimizes a softened ranking surrogate that we rigorously prove is fundamentally oblivious to score separation quality and unrelated to AUC. This mismatch leads to poor calibration and suboptimal performance in downstream tasks like retrieval-augmented generation (RAG). To address this fundamental limitation, we introduce the MW loss, a new training objective that maximizes the Mann-Whitney U statistic, which is mathematically equivalent to the Area under the ROC Curve (AUC). MW loss encourages each positive-negative pair to be correctly ranked by minimizing binary cross entropy over score differences. We provide theoretical guarantees that MW loss directly upper-bounds the AoC, better aligning optimization with retrieval goals. We further promote ROC curves and AUC as natural threshold free diagnostics for evaluating retriever calibration and ranking quality. Empirically, retrievers trained with MW loss consistently outperform contrastive counterparts in AUC and standard retrieval metrics. Our experiments show that MW loss is an empirically superior alternative to Contrastive Loss, yielding better-calibrated and more discriminative retrievers for high-stakes applications like RAG.

ServiceNow-AI ServiceNow-AI
·
Sep 30, 2025 2

SMOTE: Synthetic Minority Over-sampling Technique

An approach to the construction of classifiers from imbalanced datasets is described. A dataset is imbalanced if the classification categories are not approximately equally represented. Often real-world data sets are predominately composed of "normal" examples with only a small percentage of "abnormal" or "interesting" examples. It is also the case that the cost of misclassifying an abnormal (interesting) example as a normal example is often much higher than the cost of the reverse error. Under-sampling of the majority (normal) class has been proposed as a good means of increasing the sensitivity of a classifier to the minority class. This paper shows that a combination of our method of over-sampling the minority (abnormal) class and under-sampling the majority (normal) class can achieve better classifier performance (in ROC space) than only under-sampling the majority class. This paper also shows that a combination of our method of over-sampling the minority class and under-sampling the majority class can achieve better classifier performance (in ROC space) than varying the loss ratios in Ripper or class priors in Naive Bayes. Our method of over-sampling the minority class involves creating synthetic minority class examples. Experiments are performed using C4.5, Ripper and a Naive Bayes classifier. The method is evaluated using the area under the Receiver Operating Characteristic curve (AUC) and the ROC convex hull strategy.

  • 4 authors
·
Jun 9, 2011

Improving Audio Captioning Models with Fine-grained Audio Features, Text Embedding Supervision, and LLM Mix-up Augmentation

Automated audio captioning (AAC) aims to generate informative descriptions for various sounds from nature and/or human activities. In recent years, AAC has quickly attracted research interest, with state-of-the-art systems now relying on a sequence-to-sequence (seq2seq) backbone powered by strong models such as Transformers. Following the macro-trend of applied machine learning research, in this work, we strive to improve the performance of seq2seq AAC models by extensively leveraging pretrained models and large language models (LLMs). Specifically, we utilize BEATs to extract fine-grained audio features. Then, we employ Instructor LLM to fetch text embeddings of captions, and infuse their language-modality knowledge into BEATs audio features via an auxiliary InfoNCE loss function. Moreover, we propose a novel data augmentation method that uses ChatGPT to produce caption mix-ups (i.e., grammatical and compact combinations of two captions) which, together with the corresponding audio mixtures, increase not only the amount but also the complexity and diversity of training data. During inference, we propose to employ nucleus sampling and a hybrid reranking algorithm, which has not been explored in AAC research. Combining our efforts, our model achieves a new state-of-the-art 32.6 SPIDEr-FL score on the Clotho evaluation split, and wins the 2023 DCASE AAC challenge.

  • 7 authors
·
Sep 29, 2023

CoNeTTE: An efficient Audio Captioning system leveraging multiple datasets with Task Embedding

Automated Audio Captioning (AAC) involves generating natural language descriptions of audio content, using encoder-decoder architectures. An audio encoder produces audio embeddings fed to a decoder, usually a Transformer decoder, for caption generation. In this work, we describe our model, which novelty, compared to existing models, lies in the use of a ConvNeXt architecture as audio encoder, adapted from the vision domain to audio classification. This model, called CNext-trans, achieved state-of-the-art scores on the AudioCaps (AC) dataset and performed competitively on Clotho (CL), while using four to forty times fewer parameters than existing models. We examine potential biases in the AC dataset due to its origin from AudioSet by investigating unbiased encoder's impact on performance. Using the well-known PANN's CNN14, for instance, as an unbiased encoder, we observed a 1.7% absolute reduction in SPIDEr score (where higher scores indicate better performance). To improve cross-dataset performance, we conducted experiments by combining multiple AAC datasets (AC, CL, MACS, WavCaps) for training. Although this strategy enhanced overall model performance across datasets, it still fell short compared to models trained specifically on a single target dataset, indicating the absence of a one-size-fits-all model. To mitigate performance gaps between datasets, we introduced a Task Embedding (TE) token, allowing the model to identify the source dataset for each input sample. We provide insights into the impact of these TEs on both the form (words) and content (sound event types) of the generated captions. The resulting model, named CoNeTTE, an unbiased CNext-trans model enriched with dataset-specific Task Embeddings, achieved SPIDEr scores of 44.1% and 30.5% on AC and CL, respectively. Code available: https://github.com/Labbeti/conette-audio-captioning.

  • 3 authors
·
Sep 1, 2023

StealthRL: Reinforcement Learning Paraphrase Attacks for Multi-Detector Evasion of AI-Text Detectors

AI-text detectors face a critical robustness challenge: adversarial paraphrasing attacks that preserve semantics while evading detection. We introduce StealthRL, a reinforcement learning framework that stress-tests detector robustness under realistic adversarial conditions. StealthRL trains a paraphrase policy against a multi-detector ensemble using Group Relative Policy Optimization (GRPO) with LoRA adapters on Qwen3-4B, optimizing a composite reward that balances detector evasion with semantic preservation. We evaluate six attack settings (M0-M5) against three detector families (RoBERTa, FastDetectGPT, and Binoculars) at the security-relevant 1% false positive rate operating point. StealthRL achieves near-zero detection (0.001 mean TPR@1%FPR), reduces mean AUROC from 0.74 to 0.27, and attains a 99.9% attack success rate. Critically, attacks transfer to a held-out detector family not seen during training, revealing shared architectural vulnerabilities rather than detector-specific brittleness. We additionally conduct LLM-based quality evaluation via Likert scoring, analyze detector score distributions to explain why evasion succeeds, and provide per-detector AUROC with bootstrap confidence intervals. Our results expose significant robustness gaps in current AI-text detection and establish StealthRL as a principled adversarial evaluation protocol. Code and evaluation pipeline are publicly available at https://github.com/suraj-ranganath/StealthRL.

Faithfulness Metrics Don't Measure Faithfulness: A Meta-Evaluation with Ground Truth

Chains of thought (CoTs) have become central in interpreting and auditing behaviors of large language models. Yet growing evidence suggests that these traces often fail to faithfully represent the computations behind a model's predictions. Several faithfulness metrics have been proposed, but whether they indeed measure faithfulness remains unknown. Answering this requires ground-truth labels, which are hard to obtain since internal computations are not directly observable. Consequently, most works proposing metrics report only absolute scores or comparisons to prior metrics, and the few existing benchmarks rely on proxies like plausibility or importance, properties orthogonal to faithfulness that can mislead about whether a CoT can be trusted. We address this challenge by constructing tasks whose outputs reveal which intermediate computations must have produced them, and developing an automated labeling pipeline that yields ground-truth faithfulness labels at both the step and CoT level. Building on this methodology, we present BonaFide, a benchmark of 3,066 labeled CoTs across 13 tasks and 10 models, and use it to conduct the first systematic evaluation of prominent faithfulness metrics. Our experiments show that most metrics perform near chance, exhibit strong prediction biases and degrade on longer CoTs. The best metric reaches only 0.70 AUROC at the CoT level while another reaches 0.59 at the step level, with neither transferring across settings, while entailing prohibitively high computational cost. Our results expose fundamental gaps in current faithfulness evaluation and call for the development of more reliable and efficient metrics.

SwinCheX: Multi-label classification on chest X-ray images with transformers

According to the considerable growth in the avail of chest X-ray images in diagnosing various diseases, as well as gathering extensive datasets, having an automated diagnosis procedure using deep neural networks has occupied the minds of experts. Most of the available methods in computer vision use a CNN backbone to acquire high accuracy on the classification problems. Nevertheless, recent researches show that transformers, established as the de facto method in NLP, can also outperform many CNN-based models in vision. This paper proposes a multi-label classification deep model based on the Swin Transformer as the backbone to achieve state-of-the-art diagnosis classification. It leverages Multi-Layer Perceptron, also known as MLP, for the head architecture. We evaluate our model on one of the most widely-used and largest x-ray datasets called "Chest X-ray14," which comprises more than 100,000 frontal/back-view images from over 30,000 patients with 14 famous chest diseases. Our model has been tested with several number of MLP layers for the head setting, each achieves a competitive AUC score on all classes. Comprehensive experiments on Chest X-ray14 have shown that a 3-layer head attains state-of-the-art performance with an average AUC score of 0.810, compared to the former SOTA average AUC of 0.799. We propose an experimental setup for the fair benchmarking of existing methods, which could be used as a basis for the future studies. Finally, we followed up our results by confirming that the proposed method attends to the pathologically relevant areas of the chest.

  • 5 authors
·
Jun 8, 2022

AD-BERT: Using Pre-trained contextualized embeddings to Predict the Progression from Mild Cognitive Impairment to Alzheimer's Disease

Objective: We develop a deep learning framework based on the pre-trained Bidirectional Encoder Representations from Transformers (BERT) model using unstructured clinical notes from electronic health records (EHRs) to predict the risk of disease progression from Mild Cognitive Impairment (MCI) to Alzheimer's Disease (AD). Materials and Methods: We identified 3657 patients diagnosed with MCI together with their progress notes from Northwestern Medicine Enterprise Data Warehouse (NMEDW) between 2000-2020. The progress notes no later than the first MCI diagnosis were used for the prediction. We first preprocessed the notes by deidentification, cleaning and splitting, and then pretrained a BERT model for AD (AD-BERT) based on the publicly available Bio+Clinical BERT on the preprocessed notes. The embeddings of all the sections of a patient's notes processed by AD-BERT were combined by MaxPooling to compute the probability of MCI-to-AD progression. For replication, we conducted a similar set of experiments on 2563 MCI patients identified at Weill Cornell Medicine (WCM) during the same timeframe. Results: Compared with the 7 baseline models, the AD-BERT model achieved the best performance on both datasets, with Area Under receiver operating characteristic Curve (AUC) of 0.8170 and F1 score of 0.4178 on NMEDW dataset and AUC of 0.8830 and F1 score of 0.6836 on WCM dataset. Conclusion: We developed a deep learning framework using BERT models which provide an effective solution for prediction of MCI-to-AD progression using clinical note analysis.

  • 12 authors
·
Nov 6, 2022

Cross-modal linkage risk in clinical vision-language models

Vision-language models (VLMs) trained on paired chest radiographs and radiology reports learn a shared embedding space that can preserve instance-level image-report correspondence. This poses a privacy risk in settings where radiographs and reports are deliberately kept separate after acquisition, such as image-only data sharing or access-controlled reports, because a de-identified image may be re-linked to its original narrative report through cosine similarity alone. We formalized this as image-to-report retrieval and used public paired cohorts, in which the true pairing is known by design, as ground-truth benchmarks to audit the risk rather than as the privacy scenario. Evaluating VLMs of increasing clinical specialization on 406,241 paired examples from 126,804 patients across MIMIC-CXR (43,793 held-out pairs) and external CheXpert Plus (29,296 pairs), we found that re-linkage rose systematically with specialization: the strongest VLM retrieved the correct report at 15 times chance at a candidate pool of N = 100, 50 times chance at N = 10,000, and well above chance at full-database scale. The signal persisted under pathology-matched hard negatives that removed disease-label shortcuts, indicating correspondence beyond broad diagnostic categories. To reduce it without retraining, we froze both encoders and applied differentially private optimization only to the projection heads defining the alignment layer (epsilon = 0.34, delta = 6x10-6). This reduced Recall@1 by 61.8% at N = 10,000 on MIMIC-CXR and transferred to CheXpert Plus without retraining, while image-side utility was largely preserved: macro AUROC for linear-probe classification across 14 labels shifted only from 79.63% to 79.43%. Targeted DP finetuning of the shared alignment layer can substantially reduce cross-modal re-linkage without materially degrading the image representations that make these models clinically useful.

  • 4 authors
·
May 31

Comparative Validation of Machine Learning Algorithms for Surgical Workflow and Skill Analysis with the HeiChole Benchmark

PURPOSE: Surgical workflow and skill analysis are key technologies for the next generation of cognitive surgical assistance systems. These systems could increase the safety of the operation through context-sensitive warnings and semi-autonomous robotic assistance or improve training of surgeons via data-driven feedback. In surgical workflow analysis up to 91% average precision has been reported for phase recognition on an open data single-center dataset. In this work we investigated the generalizability of phase recognition algorithms in a multi-center setting including more difficult recognition tasks such as surgical action and surgical skill. METHODS: To achieve this goal, a dataset with 33 laparoscopic cholecystectomy videos from three surgical centers with a total operation time of 22 hours was created. Labels included annotation of seven surgical phases with 250 phase transitions, 5514 occurences of four surgical actions, 6980 occurences of 21 surgical instruments from seven instrument categories and 495 skill classifications in five skill dimensions. The dataset was used in the 2019 Endoscopic Vision challenge, sub-challenge for surgical workflow and skill analysis. Here, 12 teams submitted their machine learning algorithms for recognition of phase, action, instrument and/or skill assessment. RESULTS: F1-scores were achieved for phase recognition between 23.9% and 67.7% (n=9 teams), for instrument presence detection between 38.5% and 63.8% (n=8 teams), but for action recognition only between 21.8% and 23.3% (n=5 teams). The average absolute error for skill assessment was 0.78 (n=1 team). CONCLUSION: Surgical workflow and skill analysis are promising technologies to support the surgical team, but are not solved yet, as shown by our comparison of algorithms. This novel benchmark can be used for comparable evaluation and validation of future work.

  • 41 authors
·
Sep 29, 2021

Disentanglement and Assessment of Shortcuts in Ophthalmological Retinal Imaging Exams

Diabetic retinopathy (DR) is a leading cause of vision loss in working-age adults. While screening reduces the risk of blindness, traditional imaging is often costly and inaccessible. Artificial intelligence (AI) algorithms present a scalable diagnostic solution, but concerns regarding fairness and generalization persist. This work evaluates the fairness and performance of image-trained models in DR prediction, as well as the impact of disentanglement as a bias mitigation technique, using the diverse mBRSET fundus dataset. Three models, ConvNeXt V2, DINOv2, and Swin V2, were trained on macula images to predict DR and sensitive attributes (SAs) (e.g., age and gender/sex). Fairness was assessed between subgroups of SAs, and disentanglement was applied to reduce bias. All models achieved high DR prediction performance in diagnosing (up to 94% AUROC) and could reasonably predict age and gender/sex (91% and 77% AUROC, respectively). Fairness assessment suggests disparities, such as a 10% AUROC gap between age groups in DINOv2. Disentangling SAs from DR prediction had varying results, depending on the model selected. Disentanglement improved DINOv2 performance (2% AUROC gain), but led to performance drops in ConvNeXt V2 and Swin V2 (7% and 3%, respectively). These findings highlight the complexity of disentangling fine-grained features in fundus imaging and emphasize the importance of fairness in medical imaging AI to ensure equitable and reliable healthcare solutions.

  • 5 authors
·
Jul 13, 2025

AdverX-Ray: Ensuring X-Ray Integrity Through Frequency-Sensitive Adversarial VAEs

Ensuring the quality and integrity of medical images is crucial for maintaining diagnostic accuracy in deep learning-based Computer-Aided Diagnosis and Computer-Aided Detection (CAD) systems. Covariate shifts are subtle variations in the data distribution caused by different imaging devices or settings and can severely degrade model performance, similar to the effects of adversarial attacks. Therefore, it is vital to have a lightweight and fast method to assess the quality of these images prior to using CAD models. AdverX-Ray addresses this need by serving as an image-quality assessment layer, designed to detect covariate shifts effectively. This Adversarial Variational Autoencoder prioritizes the discriminator's role, using the suboptimal outputs of the generator as negative samples to fine-tune the discriminator's ability to identify high-frequency artifacts. Images generated by adversarial networks often exhibit severe high-frequency artifacts, guiding the discriminator to focus excessively on these components. This makes the discriminator ideal for this approach. Trained on patches from X-ray images of specific machine models, AdverX-Ray can evaluate whether a scan matches the training distribution, or if a scan from the same machine is captured under different settings. Extensive comparisons with various OOD detection methods show that AdverX-Ray significantly outperforms existing techniques, achieving a 96.2% average AUROC using only 64 random patches from an X-ray. Its lightweight and fast architecture makes it suitable for real-time applications, enhancing the reliability of medical imaging systems. The code and pretrained models are publicly available.

  • 5 authors
·
Feb 23, 2025

Deep Learning-Based Breast Cancer Detection in Mammography: A Multi-Center Validation Study in Thai Population

This study presents a deep learning system for breast cancer detection in mammography, developed using a modified EfficientNetV2 architecture with enhanced attention mechanisms. The model was trained on mammograms from a major Thai medical center and validated on three distinct datasets: an in-domain test set (9,421 cases), a biopsy-confirmed set (883 cases), and an out-of-domain generalizability set (761 cases) collected from two different hospitals. For cancer detection, the model achieved AUROCs of 0.89, 0.96, and 0.94 on the respective datasets. The system's lesion localization capability, evaluated using metrics including Lesion Localization Fraction (LLF) and Non-Lesion Localization Fraction (NLF), demonstrated robust performance in identifying suspicious regions. Clinical validation through concordance tests showed strong agreement with radiologists: 83.5% classification and 84.0% localization concordance for biopsy-confirmed cases, and 78.1% classification and 79.6% localization concordance for out-of-domain cases. Expert radiologists' acceptance rate also averaged 96.7% for biopsy-confirmed cases, and 89.3% for out-of-domain cases. The system achieved a System Usability Scale score of 74.17 for source hospital, and 69.20 for validation hospitals, indicating good clinical acceptance. These results demonstrate the model's effectiveness in assisting mammogram interpretation, with the potential to enhance breast cancer screening workflows in clinical practice.

  • 15 authors
·
May 29, 2025

Measuring Maximum Activations in Open Large Language Models

The dynamic range of activations is a first-order constraint for low-bit quantization, activation scaling, and stable LLM inference. Prior work characterized outlier features and massive activations on pre-2024 LLaMA-style models, and the downstream activation-quantization stack inherits that picture without revisiting it for the post-LLaMA open-model boom. We ask the deployment-oriented question: how large can activations get in modern open LLMs, and how does this magnitude vary across families, generations, and training stages? Under a unified pipeline (5,000-sample multi-domain corpus, family-specific tokenization, identical hooks across embeddings, hidden states, attention, MLP/MoE, SwiGLU gates, and final norm), we measure global and layerwise maxima on 27 checkpoints from 8 open families spanning dense, MoE, vision-language, intermediate-training, and instruction-tuned variants. We find that (i) global maxima span over nearly four orders of magnitude at comparable parameter counts, with Qwen3.5 and MoE checkpoints in the 10^2 to 10^3 range and Gemma3-27B-it reaching ~7 x 10^5; (ii) cross-family and cross-generation comparisons break simple monotonic scaling; and (iii) MoE checkpoints exhibit 14.0-23.4x lower peaks than matched-scale dense counterparts, while the residual stream carries the global maximum in 22/24 checkpoints. A lightweight INT-8 sanity check shows that measured maxima co-vary with low-bit reconstruction error via activation-scale selection. We conclude that maximum activation magnitude is a model property tied to family, architecture, and training stage - not a simple byproduct of size - and should be measured and reported alongside any open-weight release before low-bit deployment. The code is publicly available at https://github.com/clx1415926/Max_act_llm.

baidu BAIDU
·
May 14 2

HaT5: Hate Language Identification using Text-to-Text Transfer Transformer

We investigate the performance of a state-of-the art (SoTA) architecture T5 (available on the SuperGLUE) and compare with it 3 other previous SoTA architectures across 5 different tasks from 2 relatively diverse datasets. The datasets are diverse in terms of the number and types of tasks they have. To improve performance, we augment the training data by using an autoregressive model. We achieve near-SoTA results on a couple of the tasks - macro F1 scores of 81.66% for task A of the OLID 2019 dataset and 82.54% for task A of the hate speech and offensive content (HASOC) 2021 dataset, where SoTA are 82.9% and 83.05%, respectively. We perform error analysis and explain why one of the models (Bi-LSTM) makes the predictions it does by using a publicly available algorithm: Integrated Gradient (IG). This is because explainable artificial intelligence (XAI) is essential for earning the trust of users. The main contributions of this work are the implementation method of T5, which is discussed; the data augmentation using a new conversational AI model checkpoint, which brought performance improvements; and the revelation on the shortcomings of HASOC 2021 dataset. It reveals the difficulties of poor data annotation by using a small set of examples where the T5 model made the correct predictions, even when the ground truth of the test set were incorrect (in our opinion). We also provide our model checkpoints on the HuggingFace hub1 to foster transparency.

  • 6 authors
·
Feb 11, 2022

How to Evaluate the Generalization of Detection? A Benchmark for Comprehensive Open-Vocabulary Detection

Object detection (OD) in computer vision has made significant progress in recent years, transitioning from closed-set labels to open-vocabulary detection (OVD) based on large-scale vision-language pre-training (VLP). However, current evaluation methods and datasets are limited to testing generalization over object types and referral expressions, which do not provide a systematic, fine-grained, and accurate benchmark of OVD models' abilities. In this paper, we propose a new benchmark named OVDEval, which includes 9 sub-tasks and introduces evaluations on commonsense knowledge, attribute understanding, position understanding, object relation comprehension, and more. The dataset is meticulously created to provide hard negatives that challenge models' true understanding of visual and linguistic input. Additionally, we identify a problem with the popular Average Precision (AP) metric when benchmarking models on these fine-grained label datasets and propose a new metric called Non-Maximum Suppression Average Precision (NMS-AP) to address this issue. Extensive experimental results show that existing top OVD models all fail on the new tasks except for simple object types, demonstrating the value of the proposed dataset in pinpointing the weakness of current OVD models and guiding future research. Furthermore, the proposed NMS-AP metric is verified by experiments to provide a much more truthful evaluation of OVD models, whereas traditional AP metrics yield deceptive results. Data is available at https://github.com/om-ai-lab/OVDEval

  • 8 authors
·
Aug 25, 2023