Model Interpretability

In this work, we propose a unified approach for diagnosing misclassification and assessing the robustness of black-box classifiers. Central to our method is an optimization framework that modifies an instance so that the classifier predicts a specified target label, while ensuring that the modification remains easily explainable. The objective function contains two components: an explainability-aware $L_0$ (XA-$L_0$) penalty that promotes sparse and interpretable modifications, and a classifier loss objective that steers the perturbed instance toward the desired output. This integrated optimization formulation is used both to identify the underlying causes of misclassification and to evaluate robustness by determining how an instance can change within a tolerance region before being reassigned to another class. To quantify robustness, we introduce the Tolerance Region Confusion Matrix (TOR-Confusion Matrix), which measures a classifier's susceptibility by modeling the class-to-class transition probabilities induced by tolerance-bounded perturbations. We validate the proposed method on both image and tabular datasets, demonstrating its ability to jointly deliver interpretability and robustness assessment.

The increasing adoption of end-to-end learning for autonomous driving introduces increased model complexity and opacity, raising the risk of learning undesired or erroneous behavior. In this work, we integrate unsupervised dictionary learning as a post hoc interpretability module within state-of-the-art driving models to decompose driving behavior into semantically meaningful concepts while demonstrating their causal influence on the model's driving decisions. We propose a stepwise framework for extracting and interpreting meaningful concepts from the end-to-end model and connecting them to the multifaceted model outputs, thereby revealing the underlying decision-making logic for the prediction of future trajectories. Furthermore, targeted interventions at the concept level allow us to manipulate and correct driving decisions, resulting in measurable improvements in overall driving performance. We thus demonstrate how interpretability can effectively be used to reduce model opacity, uncover erroneous behavior, and enable targeted mitigation, ultimately boosting model performance.

Integrating complex, multi-omics data presents significant challenges. Existing approaches often face a trade-off between model interpretability and representational capacity, with most either relying on post-hoc interpretation or use linear models that may overlook complex interactions. We report Pathway Activity Autoencoders for the multi-omics setting, which embed prior knowledge via pathway-informed architectural constraints, fostering interpretability, while preserving representational power. Our multi-omic framework is applied in the context of breast cancer and is evaluated in survival prediction and subtype classification with results indicating a positive effect of integration. We conduct analysis of individual omics layer impact on end-task performance, revealing that gene, protein, and microRNA expression layers provide the strongest contribution. Repeatability studies indicate that, while dropout improves model robustness and consistency, excessive regularisation can reduce predictive performance. Finally, visualizations of the learned feature space illustrate the framework's intrinsic transparency and clinical relevance. The results underscore the value of multi-omic integration and delineate the impact of individual omics layers, establishing practical guidelines for integration within our framework. Overall, our pathway activity autoencoder frameworks yield superior latent representations that are biologically meaningful and are directly translatable into clinically relevant insights.

The adoption of non-parametric machine learning models for regulatory capital estimation introduces a fundamental governance challenge: the inability to explain model outputs in a manner auditable by supervisory bodies. This 'black box' problem remains a major barrier to the adoption of Gaussian Process Regression (GPR) and related ML architectures in ICAAP and CCAR workflows despite their predictive advantages over traditional parametric approaches. This paper addresses this barrier through SHARC (SHAP for Regulatory Capital), an explainability framework for the Hybrid GPR-HS architecture and its stress-testing extension. SHapley Additive exPlanations (SHAP), derived from cooperative game theory and satisfying the properties of Local Accuracy, Missingness, Consistency, and Efficiency, are applied to Stressed Value-at-Risk (SVaR) outputs under three macro scenarios: West Asia War, Climate Risk, and AI Bubble/Regulatory Burden. SHARC decomposes SVaR into baseline, mean-driven, and volatility-driven components, enabling transparent linkage between scenario design and capital outcomes. Two findings emerge. First, SHARC consistently links non-linear SVaR outputs to underlying scenario inputs, confirming framework fidelity and providing auditable traceability of capital drivers. Second, under stress conditions, the mean return component (directional loss magnitude) dominates the variance component (volatility baseline) in determining capital levels, with implications for capital limit-setting, position management, and hedging strategy. The results establish SHARC as a regulator-aligned explainability layer that makes the Hybrid GPR-HS framework fully auditable and consistent with FRTB, ICAAP Pillar 2, and CCAR transparency requirements.

Minimum Bayes Risk (MBR) decoding yields more robust and higher-quality text generation than maximum a posteriori (MAP) decoding by selecting hypotheses that maximize expected utility over sampled pseudo-references. However, there exists a discrepancy in the design: hypothesis selection calculates expected utility scores conditioned on given pseudo-references, while commonly used evaluation metrics, e.g., BLEU and COMET, are asymmetric. Therefore, it is important to consider both hypothesis-to-reference and reference-to-hypothesis directional effects. In this study, we introduce a noisy channel decomposition of MBR decoding that naturally incorporates bidirectional effects to account for these asymmetries. We decompose MBR decoding into four interacting components: hypothesis-to-reference likelihood, reference-to-hypothesis likelihood, hypothesis prior, and reference prior. This decomposition provides a unified interpretation of existing MBR variants and enables metric- and task-specific interpretability by isolating the contribution of each channel. Our comprehensive analysis reveals that channel-wise contributions exhibit distinct characteristics across metrics while remaining consistent across tasks, and suggests that appropriate channel weighting may lead to improvements over original MBR decoding.

Interpretability methods aim to reveal the features represented inside large language models (LLMs). Many existing methods begin with labeled examples of a human-defined concept that may reflect human biases, and then identify how that concept is represented within the model, for example in its activation space or through other decomposition methods. We introduce \emph{Mining via Activation Geometry} (MAG), a simple unsupervised framework for extracting reasoning features from model activations by prepending the same natural-language instruction $Q$ to every input $p$, where $Q$ defines the reasoning feature of interest, such as Can this object be found in the desert?'' or Is this prompt malicious?'' We measure how the instruction changes the model's internal representation using $m(Q \mid p) - m(p)$ at a single readout point. We explore eight different MAGs. The extracted reasoning features predict the models' own world understanding and judgment, can be approximated into a single activation direction, we found that some features are more linearly represented and some less, this linear representation, which is vector steering, can change the LLMs' decisions through activation steering by injecting reasoning features. Finally, we use the same method to select the best training datasets for prompt-injection classifier probes: while similarity between ordinary activations is almost unrelated to downstream performance, RFD-based similarity achieves $94.7\%$ Top-1 and $100\%$ Top-2 accuracy.

Dialectal data are scarce relative to Modern Standard Arabic (MSA), causing Arabic LLMs to overproduce MSA and struggle with dialectally accurate generation. This raises a fundamental interpretability question about where and how dialectal features are encoded within model internals and whether these representations can improve dialect generation without fine-tuning. We study two inference-time approaches as interpretability probes and control mechanisms. First, neuron-level analysis identifies sparse populations that encode dialect-specific features and tests whether amplifying or suppressing them steers model outputs toward target dialects. Second, vector steering extracts dialect-specific activation directions and injects them during inference, motivated by feature entanglement at the neuron level. We find that these neurons are real but only partially explanatory. They occupy under 1% of MLP dimensions but span only 5% to 21% of the residual dialect direction. This limited coverage is causally consequential. Neuron steering reinforces dialect in some varieties when the prompt is already dialectal but cannot induce it from MSA prompts, whereas vector steering succeeds in both settings. Arabic dialects are therefore steerable mainly through distributed rather than localized representations

When a person shares something with a language model, the model often answers the surface of the message rather than what the sender was doing by sending it: share a finished project and it critiques the code; share a raw late-night line and it runs a wellness check. We treat the sender's communicative intent, the Gricean what-was-meant, as a first-class interpretability object, and show the failure is one of readout on top of a robust representation. A linear probe decodes the sender's intent, whether they want a thing recognized or evaluated, from a model's default-pass hidden states, cleanly and surface-independently, across six models and four families and in the base checkpoints. The representation generalizes further, to intent that is only pragmatically inferred, and to a second, lexically clean intent (support versus help). The behavioral half of the story, and every causal test, is established on the recognize/evaluate contrast, where what varies is whether the default output acts on the intent. The readout lags the representation in depth within a model (the intent is decodable several layers before it drives the output); across models, which ones act on it by default is model-specific, an observed stratification (three of six show the failure) that we do not read as a scaling law. Where the gap is open, a direction closely tied to the representation, the discriminative direction at a searched-for layer, is a causal handle: steering it recovers the intended behavior, as well as an explicit instruction does and with no prompt at all. This direction is near-orthogonal to the feedback-offering axis, so it routes a represented intent rather than a generic feedback knob, though at the recovery dose the routed intent can override an explicit request. We support each link with controls against obvious deflations and report the nulls as plainly as the confirmations.

Steering and monitoring activations in Large Language Models (LLMs) are increasingly used for both safety and interpretability. Early work assumed behaviours are encoded along single linear directions, but recent findings suggest complex behaviours, such as the refusal to answer harmful queries, live in multi-dimensional subspaces. However, existing methods for extracting these subspaces are computationally expensive, which becomes prohibitive on reasoning models who produce long reasoning traces. By adapting the Recursive Feature Machine (RFM) algorithm -- which can be computed efficiently -- with a probe-informed initialization, we are able to identify the multi-dimensional refusal subspace in seconds, on reasoning (Qwen 3) and non-reasoning (Qwen 2.5) models. While RFM allows for faster subspace identification, it also showed better performances on the ablation task than its alternatives. More work is planned to better understand the relations between subspaces found by different methods. If confirmed, RFM could be a cheap and scalable complement to existing subspace-extraction methods in LLMs.

Deep learning has outgrown any single mathematical explanation. From Approximation to Emergence develops a unified, proof-oriented account of modern deep learning theory, tracing a path from the classical foundations of approximation, optimization, and generalization to the contemporary mechanisms of overparameterization, robustness, generative modeling, transformers, in-context learning, scaling laws, interpretability, alignment, and emergence. Rather than presenting isolated results, the book organizes a broad literature into a coherent research narrative: each theory is examined through the object it controls, the assumptions that make it valid, and the phenomena it leaves unexplained. Written for researchers, graduate students, and mathematically trained practitioners, this monograph offers a rigorous map of deep learning theory as it stands today: powerful, incomplete, and increasingly centered on the question of how learned mechanisms arise from scale, data, architecture, and training.

Complexity and interpretability rarely coincide: systems rich enough for complex behaviours to emerge are usually too opaque to question, while transparent ones are too simple for anything complex to emerge. A single large language model (LLM) is a static artefact, hardly exhibiting any of the emergent properties we associate with life. This changes through interaction: populations of LLMs display emergent dynamics absent from isolated models. Furthermore, LLMs can be endowed with persistent memory, tools and shared skills, and the capacity to initiate actions unprompted, i.e., turning LLMs agentic. In this paper, we argue that such collectives of agents can serve as a computational substrate for Artificial Life (ALife) research. Critically, since the agents communicate in natural language, their collective behaviour can be directly interrogated by examining textual traces and asking the agents themselves. We outline the notion of interpretability in language-model research and extend it for collectives of agents. Lastly, we survey recent examples of agentic LLM collectives that already instantiate the idea of agentic substrates, from controlled experiments to deployments in the wild.

Model organisms (MOs) - language models trained to exhibit undesired or unnatural behaviours - are frequently used as testbeds for evaluating white-box interpretability techniques. Current MOs are typically constructed via post-hoc supervised fine-tuning (SFT) on behavioural transcripts or synthetic documents. Prior research has shown that interpretability methods can easily identify hidden behaviours in these MOs. However, recent work suggests that such post-hoc training methods may make interpretability unrealistically easy. We investigate this claim by constructing a suite of 54 $\verb|OLMo2-1B|$- and $\verb|gemma-3-1b-it|$-based MOs trained with seven different techniques, including standard post-hoc SFT, post-hoc DPO, and more realistic integration of MO data into the OLMo post-training DPO phase. We use these MO variants to benchmark activation oracles, activation steering, logit lens, and sparse autoencoders. Our findings show that (i) MO interpretability depends strongly on training objective, target behaviour, model architecture, and training data generation pipeline; (ii) substantial variance remains even after controlling for differences in the strength of target behaviour expression; and (iii) our more realistic $\textit{integrated training}$ often yields less interpretable MOs than standard post-hoc methods. Our results cast substantial doubt on the validity of current MOs as interpretability proxies.

In light of strides in Arti cial Intelligence (AI) and its wide spread application, challenges persist in the interpretability of AI models, particularly within specialized domains like healthcare, such as electro cardiograph (ECG) recognition. Rather than relying solely on end-to-end convolutional neural networks, this paper introduces a novel approach using a domain knowledge-based graph convolution network for ECG recognition. Key landmarks points of PRQST, vital to ECG interpreta tion, are incorporated as domain knowledge. The double-stream directed graph is employed to model both intra and inter ECG cycles. Speci cally, spatial directed graphs capture the positional relationships among key points, while temporal directed graphs delineate temporal dependencies between adjacent cycles in extended ECG sequences. Experimental re sults on the First Chinese ECG Intelligent Competition dataset, which speci cally classify ECG into nine categories, prove the e cacy of the proposed model. The overall average F1 score is 88.1%, the average F1 score of rare categories is 76.3%, both outperform the state-of-the-art models. The introduction of domain knowledge did enhance the detec tion performance, especially for rare categories.

Concept Bottleneck Models (CBMs) provide interpretability by routing predictions through a layer of human-understandable concepts. However, defining an optimal concept set for a specific dataset remains an open challenge. Existing approaches rely on expensive expert annotations or LLM-generated lists based solely on class names. Even "open-vocabulary" variants typically depend on static concept sets, which restrict discovery and introduce label bias. Furthermore, traditional CBMs often suffer from information leakage, where unmodeled visual features bypass the bottleneck and compromise the integrity of the explanations. To overcome these limitations, we propose Caption Bottleneck Models (CaBM), a framework that circumvents the need for predefined concept sets by replacing rigid concept layers with free-form natural language. By representing images via LMM-generated captions and training a classifier strictly on this text, CaBM ensures a leakage-free architecture by construction. Additionally, by analyzing the text classifier post-training, CaBM autonomously discovers high-quality, dataset-specific concepts. Our results across fine- and coarse-grained benchmarks demonstrate that CaBM achieves competitive accuracy while preserving interpretability without the constraints of external dictionaries or manual labeling.

The research proposes a multilayer Q-matrix-embedded neural network for cognitive diagnosis (M-QCDNet), which integrates the structural interpretability of cognitive diagnostic models (CDMs) with the deep learning neural network (NN). M-QCDNet structures the item-skill relationship using the Q-matrix as a structural prior, ensuring latent mastery profiles remain interpretable and consistent with cognitive theory, followed by the proposed loss function with an L2 penalty to penalize skills not aligned with the Q-matrix and to balance predictive performance and structural alignment. Corresponding evaluation matrices, the interpretable alignment-based metrics that quantify the degree to which predicted skill activations correspond to item-level skills, were further developed. M-QCDNet offers practical benefits for classroom practice, enabling early detection of learning difficulties and supporting mastery-based interventions. By embedding diagnostic validity into model design, M-QCDNet bridges psychometric transparency and neural flexibility, advancing interpretable, fair, and actionable AI for cognitive diagnostics.

Mechanistic interpretability has produced a rich inventory of component-level analyses that characterise what neural-network components encode and how they interact. Their outputs, however, are not easily reusable: selectivity tables, circuit diagrams, and feature lists remain locked in per-study notebooks - non-composable, not queryable in natural language, and not directly actionable for downstream audit or intervention. We study the representation layer that sits between these analyses and downstream use as a bottleneck that can be evaluated independently, and introduce Manifestation Units, a typed tuple protocol (E, S, R, D, G) extended with attention-head primitives (T) for transformer architectures, organising per-component statistics into structured fields populated automatically and queried through hybrid retrieval. Instantiated across generative vision (beta-VAE), discriminative vision (CNN), and language (GPT-2), the protocol supports two findings: typed structure substantially outperforms unstructured baselines on retrieval, and CNN filters retrieved by the schema satisfy causal sufficiency and necessity criteria under matched-budget controls. The schema absorbs attention-head primitives without modification, set-recovers known IOI circuit members under retrieval-budget-matched controls, and reveals an irreducible two-field core (S+R) with remaining fields either redundant or actively interfering. We present this as schema infrastructure for mechanistic interpretability rather than frontier-scale validation.

Artificial intelligence is transforming our capability to solve biological challenges. In dimensionality bottleneck regimes exacerbated by high-dimensional biological data, neural networks force distinct concepts into the lower dimensions known as superposition. Although this superposition is widely known to hinder interpretability, its impact on corrupting the geometry of latent spaces remains critically overlooked. Here, we utilized sparse autoencoders (SAEs) trained on over 100,000 multiplexed images of patient-derived Parkinson's disease and healthy neurons to resolve superposition. This approach bypasses the mathematical non-uniqueness of feature attribution by shifting to interpretable latent representation analysis. We theoretically and empirically demonstrate that superposition contaminates representational metric spaces, and thereby SAEs successfully recover geometric fidelity. By treating these geometrically purified representations as single-cell state vectors, we adapted single-cell RNA sequencing (scRNA-seq) data analysis methodologies directly to the image domain. Finally, we introduce GW-map, utilizing Gromov-Wasserstein optimal transport to align these image representations with authentic scRNA-seq data de novo. This coupling reconstructs hierarchical neuronal pathology pathways such as Calcium-AIS scaffold, without reference spatial transcriptomics, establishing a scalable foundation for spatial biology. Code is available at https://github.com/jijihihi/Bio\_superposition

Recent work has shown that well-optimized individual decision trees can match complex black box models in some settings, primarily in noisy domains. For the remaining settings, however, complex ensembled compositions of trees often achieve higher accuracy at the cost of interpretability, leaving practitioners with difficult modeling decisions along an accuracy-interpretability tradeoff. Ideally, we would like to classify as much of the data as possible with one or a small number of trees, achieving interpretability for most samples while maintaining state-of-the-art accuracy. We introduce Multistage Defer Trees: a sequence of sparse decision trees that each make predictions for most samples, while deferring a small proportion to the next tree in the sequence or, ultimately, to a black box. We demonstrate that we can train this model class to match the performance of complex tree-based ensembles while routing most samples through only one or a small number of sparse decision trees. We discuss a range of techniques for training these models while maintaining simplicity. Our method expands the accuracy--interpretability frontier in settings where single-tree methods remain insufficient, demonstrating that even when complex models are necessary, they need not be fully opaque.

Explainability in Many-Objective Optimization (MaO) is currently hindered by the escalating complexity of the Pareto front, which renders the relationship between high-dimensional decision variables and objective outcomes increasingly opaque. As the number of objectives exceeds the limits of traditional visualization, decision-makers encounter a cognitive drought'' in identifying relevant trade-offs or specifying target regions without a priori knowledge. To bridge this interpretability gap, we introduce the {Partition-Guided Distance Saliency (PGDS)} framework, a novel XAI approach designed for continuous optimization landscapes. Our framework automates the explanation process through a three-stage pipeline that prioritizes geometric intuition over abstract rules. First, we employ a surrogate model that learns how geometric distances in the decision space map to proximity in the objective space. Second, to address the difficulty of manual target selection in high dimensions, the framework automatically partitions the objective landscape into distinct regions and identifies local Dominating Points'' to serve as automated targets for improvement. Third, we quantify how sensitive a solution's position is to each decision variable by measuring the distance shifts induced by perturbations to each variable. This allows PGDS to categorize features as either Drivers'' which facilitate convergence toward preferred regions, or Blockers'' which represent geometric constraints hindering further progress. Validation on 10-objective benchmarks and a physics-informed engineering problem (Welded Beam) demonstrates that PGDS provides differentiated, actionable insights that traditional visualization and rule-based XAI methods fail to provide.

Interpretable Mesomorphic Neural Networks (IMNs) offer a promising framework that combines the predictive power of deep neural networks with the interpretability of linear models. However, the original formulation lacks safeguards to ensure that the learned interpretations are in fact reliable. In particular, the network is free to concentrate all explanatory variance into a single weight of the linear output layer, achieving strong predictive performance while producing interpretations that are largely meaningless. Paradoxically, the L1 penalty proposed to encourage sparse solutions exacerbates this problem by further incentivizing such degenerate configurations. To address this vulnerability, we introduce Local Fidelity Regularization (LFR), a novel penalty term that prevents degenerate weight collapse by aligning the linear output weights with local data variations. This structural constraint guarantees faithful explanations and substantially improves the reliability of model interpretations. Furthermore, empirical evaluations across the OpenML benchmark suite demonstrate that LFR does not compromise accuracy for explainability; rather, it achieved improved AUROC over the unregularized IMN. By yielding results highly competitive with state-of-the-art black-box models, LFR provides the dual benefit of reliable interpretability and superior predictive performance. Source code and usage instructions are available at https://github.com/hugohammer/LFR-IMN.git.

Wearable devices produce large, high dimensional training logs for everyday runners, and interpretation rather than data collection is now the limiting step. This paper evaluates five dimensionality reduction models, three autoencoder variants, PCA, and a Variational Autoencoder, on their ability to compress nine sensor runner profiles into a single scalar performance indicator, the latent score. Because the setting is fully unsupervised, model quality is assessed along two complementary axes: reconstruction error (Mean Squared Error) and latent score interpretability, measured via Spearman and Kendall rank correlations, Mutual Information, and Permutation Importance. These are combined into a composite selection criterion that prevents selecting models on reconstruction accuracy alone. Feature rankings from the four metrics are aggregated via a modified Borda count, and their stability is confirmed by bootstrap validation. A two feature linear baseline is included to anchor the comparison. Deep autoencoder achieved the lowest reconstruction error and the highest composite score. Once the PCA hidden layers were widened, the deeper variants became closely competitive with Deep AE on the composite criterion, indicating that the limiting factor was hidden layer capacity rather than the one dimensional bottleneck. Running pace, aerobic decoupling, and average heart rate emerged as the dominant latent score drivers across all models and resampling runs, consistent with established physiology.

Language models (LMs) capture large amounts of factual knowledge applicable to a wide range of tasks, motivating the view of their parameters as a knowledge base. An important property of knowledge bases is that different queries for the same fact return consistent results, drawing on a single source of truth. We investigate whether LMs satisfy this property through behavioral and mechanistic analyses. Our results suggest that they encode knowledge in a task-specific manner. Behaviorally, facts acquired on one task frequently fail to co-emerge on others during training. Parameter localization experiments suggest a mechanistic explanation, revealing distinct parameter subsets underlying different tasks for the same fact. Finally, we show that chain-of-thought reasoning draws part of its effectiveness from engaging task-specific parameters beyond those tied to the evaluation task. Our findings suggest that what the model knows and how it is asked are intertwined in parameter space, undermining the "knowledge base" analogy and carrying implications for the reliability and controllability of factual knowledge in LMs.

We review the concepts of interpretability and explainability as they apply to machine learning in physics. We define interpretability as concerning the structural transparency of a model (the ability to understand or approximate its inner workings) and explainability as concerning the scientific content of a model (the ability to map it onto domain knowledge). We discuss the trade-offs each entails (interpretability vs. expressivity; explainability vs. adaptability), the contexts in which each is needed, and the intrinsic and post-hoc tools available for achieving them. Throughout, we emphasize that machine-learned models are subject to the same scientific questions as classical models, differing only in scale, and that interpretability and explainability are best understood as deliberate modeling choices rather than inherent properties. We also emphasize the importance of task specification and intervention plans as a core aspect of model design.

Given the widespread prevalence of depression and its consequential impact on individuals and society, it is crucial to obtain objective measures for early diagnosis and intervention. As a multidisciplinary topic, these objective measures should be interpretable and accessible to health care professionals, ensuring effective collaboration and treatment planning in the realm of mental health care. Even though current automated depression diagnosis approaches improved over the last decade, a critical gap exists as they often lack affect-specificity and interpretability, limiting their practical application and potential impact on mental health care. In particular, interpretability from temporal activities from videos when deep models are used is not fully explored. In this study, we present a novel framework for analyzing Deep Neural Networks' decisions when trained on facial videos, specifically focusing on automatic depression severity diagnosis. By fine-tuning Deep Convolutional Neural Networks (DCNN) pre-trained on Action Recognition datasets on depression severity facial videos from AVEC depression dataset, our framework is able to interpret the model's saliency maps by examining face regions and temporal expression semantics. Our approach generates both visual and quantitative explanations for the model's decisions, providing greater insight into its reasoning. In addition to this interpretability, our video-based modeling has improved upon previous single-face benchmarks for visual depression diagnosis, resulting in enhanced predictive performance. Overall, our work demonstrates the successful development of a framework capable of generating hypotheses from a facial model's decisions while simultaneously improving depression's predictive capabilities.

Sparse autoencoders (SAEs) are increasingly used to extract interpretable concepts from vision and vision language models, yet existing evaluation methods largely rely on proxy metrics or qualitative inspection rather than measuring semantic correspondence. We present a human-grounded evaluation framework that quantifies alignment between SAE latents and human-annotated concepts, without requiring user studies, and validate this matching through targeted attribute perturbations. To enable this intervention-style evaluation in vision, we construct synCUB and synCOCO, synthetic benchmarks of paired images that differ in exactly one attribute. We introduce Fully-Binary Matching Pursuit (FBMP), a coalition-based matching procedure that supports many-to-one mappings between SAE latents and annotated concepts, and consistently outperforms one-to-one baselines. For functional validation, we propose a Targeted Attribute Perturbation Alignment Score (TAPAScore), which tests whether matched concepts respond selectively and in the expected direction under targeted image-level attribute perturbations. Under sanity checks, our matching and TAPAScore are the only evaluated metrics that reliably distinguish trained SAEs from untrained ones. Across SAEs trained on CLIP and DINOv2 embeddings, we find that increased overcompleteness can reduce perturbation alignment, indicating a reduction in interpretability. Our evaluation framework suggests that moderate dictionary sizes provide the best trade-off, yielding the most interpretable SAEs. Code and datasets are available at https://github.com/JonasKlotz/sae-concept-eval.

Pruning Large Language Models (LLMs) reduces memory and inference costs by removing parts of the network, producing smaller models that retain most of their accuracy. As attention layers are the most resource-intensive parts of LLMs, pruning them is a promising compression strategy. Prior work shows that up to 33% of attention layers can be pruned with minimal accuracy loss. Nevertheless, the impact of attention pruning on model interpretability, specifically faithfulness and confidence calibration, remains unstudied. To address this gap, we study how pruning attention layers affects explanation faithfulness and confidence calibration across five LLMs and eight datasets. While the pruned models often maintain high accuracy, we find that their faithfulness and calibration often degrade. Notably, faithfulness and calibration can fluctuate significantly, even when accuracy remains stable, highlighting a misalignment between model confidence, interpretability, and accuracy. Our findings suggest that layer pruning can affect LLMs' interpretability and reliability in ways not captured by accuracy and efficiency measures alone. We recommend including explainability and calibration metrics when evaluating pruned models.

Understanding the features of large language models (LLMs) is a central goal of interpretability. LLMs are commonly assumed to use superposition to represent more features than they have dimensions. They may not only represent features in superposition but also perform computation in superposition. Theory predicts that computing in superposition requires error correction that privileges feature directions over generic ones, but this prediction has not been tested empirically. We propose an empirical test of error correction in LLMs based on activation perturbations. Perturbing residual-stream activations, we find that they are robust to small perturbations--forming activation plateaus consistent with error correction--but less robust along candidate feature directions ("pure" directions, constructed from contrastive prompt pairs) than along mixtures of two such directions, indicating that the pure directions are privileged. We quantify this privilegedness by modeling the perturbation effect as a function of the $L^p$-norm of its decomposition into feature components. For $p=2$ the response is a quadratic form with at most as many nonzero eigenvalues as the residual-stream dimension, which cannot privilege the many feature directions superposition requires. $p>2$ lifts this constraint and is consistent with feature-specific error correction. We find $p>2$ for contrastive, MELBO, and SAE-decoder directions, and $p\approx2$ for random and PCA directions (controls). These results replicate across Gemma-2-9B, Qwen3-1.7B, Llama-3.1-8B, Mistral-7B-v0.3, Aya-Expanse-8B, and Yi-1.5-9B. We further validate our method on a toy model of error correction with known ground-truth features, recovering $p>2$ for true feature directions, degrading toward $2$ as we rotate away from them.

This work investigates the interpretability of a Wav2Vec 2.0based speech intelligibility assessment model for oral and oropharyngeal cancer patients through canonical correlation analysis. By measuring the correlation between the model embeddings and eGeMAPS low-level descriptors (LLDs) as an interpretable reference, we analyze how acoustic information is encoded across the model layers. The analysis is conducted at two levels: individual LLDs layer-wise, and group-level: prosodic, spectral, and voice quality. Results show that the learned representations are most strongly correlated with spectral and prosodic features, with the first MFCC coefficient yielding the highest correlations across all layers. At the group level, spectral and prosodic groups achieve correlations of 0.77 and 0.71 respectively, while voice quality reaches 0.65. Beyond model interpretability, this work also offers practical guidance on acoustic feature selection for pathological speech assessment.

More than a billion people communicate in Indic languages, yet the natural language processing infrastructure serving them remains fragmented and underdeveloped. The cause is structural: the field organizes its tools and benchmarks around individual languages or small subsets of genealogical language families, building separate analyzers, parsers, and datasets for each language and starting over for the next. This overlooks a deep regularity. Through more than two millennia of convergence around Sanskrit, Indic languages came to share a morphosyntactic architecture formalized in Pānini's grammar, the Astādhyāyī. This cuts across genealogical lines, uniting languages through a common framework. We argue that this Pāninian framework supplies a unifying computational architecture the field has lacked, and that benchmarks grounded explicitly in it would make Indic language systems more accurate, more data-efficient, and more transferable, effectively merging many apparently disparate and sparse Indic language resources into a single high-resource metalanguage bedrock. We propose a four-part benchmark suite to render this shared architecture explicit, measurable, and ready to be leveraged for practical applications. Moreover, we underscore the question it raises for interpretability research: whether neural models trained on these languages come to represent Pānini's categories on their own.

Deep learning has become an important tool in computational pathology, enabling automated analysis of histopathological images. While convolutional neural networks (CNNs) have traditionally dominated this field, transformer-based and hybrid architectures have recently demonstrated promising performance. However, comprehensive comparisons of these approaches for colorectal histopathology remain limited. This study evaluated twelve ImageNet-pretrained CNN, transformer, and hybrid architectures using the Kather colorectal histopathology dataset containing 5,000 image tiles from eight tissue classes. All models were trained using a standardized transfer-learning and fine-tuning protocol and assessed using multiple performance metrics, including accuracy, precision, sensitivity, specificity, F1-score, ROC-AUC, Cohen's kappa, and Matthews correlation coefficient. All evaluated models achieved high classification performance, with accuracies ranging from 93.2% to 97.1%. EVA-02 achieved the highest overall performance (97.1% accuracy, 97.0% F1-score), closely followed by ViT-B/16. Among CNNs, ResNet34 and ConvNeXt-Tiny demonstrated highly competitive performance, achieving accuracies of 96.4% and 96.3%, respectively. Transformer architectures generally produced the strongest results across evaluation metrics, although the performance gap between the best transformer and CNN models was relatively small. Per-class analysis showed consistently strong classification performance across all tissue categories, with Complex Stroma representing the most challenging class. Overall, transformer-based architectures achieved the highest predictive performance, whereas modern CNNs provided a favorable balance between accuracy and model complexity. These findings provide a comprehensive benchmark of major deep learning paradigms for colorectal histopathology classification.

Electroencephalogram (EEG) analysis remains the clinical gold standard for epilepsy diagnosis and seizure detection. While Deep Learning (DL) has significantly advanced automated EEG interpretation, its transition from controlled experimental settings to routine clinical deployment is severely bottlenecked by fundamental architectural flaws. Standard DL models operate as opaque black-boxes lacking clinical interpretability, demand massive amounts of balanced annotated data, and incur steep computational costs incompatible with resource-constrained wearable or implantable neuromodulation devices. This paper presents a comprehensive review of these prevailing limitations and explores Kolmogorov-Arnold Networks (KANs) as a emerging paradigm for EEG-based seizure detection. By replacing the fixed activation functions of traditional neurons with flexible, learnable functions along the network's connections, KANs bridge the critical gap between predictive accuracy and mathematical transparency. We systematically analyze how KAN architectures resolve the shortcomings of traditional DL-based models by offering exceptional parameter efficiency, inherent interpretability for physician trust, and robust performance under data scarcity. Ultimately, this review establishes KANs not merely as an incremental algorithmic update, but as a fundamental paradigm shift necessary to actualize next-generation, patient-specific, and thoroughly transparent clinical EEG monitoring systems.

Recent latent reasoning methods, such as CODI and COCONUT, face a fundamental interpretability problem: they maintain multiple superimposed candidate traces in the hidden space at each step, unlike explicit- CoT, which follows a single transparent reasoning trace. Existing mechanistic methods show compression, shortcuts, and superposition without explaining how reasoning evolves across latent steps. To address this gap, we model latent token sequences as trajectories in representation space and apply dynamical systems analysis to characterize the evolution of reasoning. Using quantitative measures, such as step-to-step change, direction consistency, and Lyapunov sensitivity, alongside qualitative projections, such as UMAP and DMD/PHATE, we show that latent CoT exhibits structured, non-random dynamics with two distinct stability classes. CODI behaves as a stable attractor, while COCONUT behaves as an unstable expanding system, and SIM-CoT supervision tightens both behaviors without changing the underlying dynamics. This framework advances the interpretability of latent CoT reasoning dynamics and provides actionable insights for improving latent reasoning performance. Code1 and Project page2 available online.

High-stakes reasoning tasks necessitate transparent and verifiable workflows, yet conventional single-model large language models (LLMs) often struggle with hallucination and low interpretability under zero-shot paradigms. To address this general AI challenge, we propose a Multi-Agent Audit Framework that simulates a collaborative, multi-step verification process. We empirically validate this architecture in the sensitive domain of clinical mental health screening using a modular LangChain workflow. Our framework decomposes the reasoning process into a Perception Agent, Knowledge Retrieval-Augmented Generation (RAG), Chain-of-Thought (CoT) clinical inference, and a critical Audit verification stage. We evaluated this framework on the DAIC-WOZ dataset using locally deployed open-source models. Experimental results demonstrate that our multi-agent pipeline significantly outperforms single-agent baselines, reducing the Mean Absolute Error (MAE) for PHQ-8 depression severity prediction from 5.35 to 5.02. By exposing cross-agent validation traces, the framework mitigates reasoning drift and provides highly interpretable diagnostic rationales, offering a generalizable paradigm for reliable AI-assisted decision support beyond isolated model scaling. We make data and code open access on GitHub for replicability.

Neural networks learn features that reflect the hierarchical, multi-scale structure of natural data. Synthetic datasets used to evaluate interpretability methods typically lack this structure, limiting their value as realistic toy models. To close this gap, we introduce a family of synthetic datasets consisting of hierarchical functions defined on critical mean-field percolation clusters embedded in a high-dimensional data space. The percolation data consists of sparse, low-dimensional fractal clusters with a power-law size distribution. Latent variables modeling a taxonomic hierarchy generate each data point's target value. The data model is analytically tractable with known critical exponents that fix its properties without requiring hyperparameter tuning. We leverage a mapping between percolation clusters, random trees, and additive coalescence to propose an almost linear-time algorithm to jointly sample a random tree and its hierarchical latent decomposition, enabling data generation at arbitrary scale. Using probing experiments, we find that the model's ground-truth latent variables can be linearly decoded from neural network activations. Together, sparsity, self-similarity, power-law statistics, and analytical tractability make critical percolation a principled testbed for interpretability research.

Concept Bottleneck Models (CBMs) enhance the interpretability of deep learning networks by aligning the features extracted from images with natural concepts. However, existing CBMs are constrained in their ability to generalize beyond a fixed set of predefined classes and the risk of non-concept information leakage, where predictive signals outside the intended concepts are inadvertently exploited. In this paper, we propose Multimodal Concept Bottleneck Model (MM-CBM) to address these issues and extend CBMs into CLIP. MM-CBM utilizes dual Concept Bottleneck Layers (CBLs) to align both the image and text embeddings into interpretable features. This allows us to perform new vision tasks like zero-shot classification or image retrieval in an interpretable way. Compared to existing methods, MM-CBM achieves up to 51.26% accuracy improvement on average across four standard benchmarks. Our method maintains high accuracy, staying within ~5% of black-box performance while offering greater interpretability.

Pre-trained language models such as BERT achieve strong text classification performance but lack transparency, limiting their use in high-stakes settings. The Tsetlin Machine (TM) offers fully interpretable, clause-based reasoning but captures little semantic information, and prior attempts to bridge the two rely on static word embeddings that miss contextual meaning. We propose a semantic pre-training framework that transfers knowledge from a pre-trained language model into a TM without using embeddings. Text samples are grouped into semantically coherent clusters with K-means or Top2Vec, and the resulting cluster-sample pairs pre-train a non-negated TM with enhanced Type I feedback. The TM thereby learns interpretable semantic keywords that are fine-tuned on downstream tasks. Across five datasets, our method substantially outperforms vanilla and embedding-based TMs and reaches performance competitive with BERT while remaining interpretable.

Linear probes are widely used in interpretability research and often compared by cosine similarity. The Mahalanobis cosine similarity (MCS) between two directions, which reweights the inner product by test data covariance, is a natural task-aware refinement. Ying et al. (2026) report that a probe's MCS to a reference probe trained on the out-of-distribution (OOD) data near-perfectly linearly predicts the probe's OOD AUROC (R^2 = 0.98). Here, we extend this empirical finding across models, layers, and concept domains, and prove this general phenomenon in closed form: For balanced classes whose projections are Gaussian, OOD AUROC and MCS to the reference probe are linear because both are sigmoid-shaped functions of the probe's signal-to-noise ratio (SNR) on the test data. The theory also predicts when this linearity fails, which we verify empirically. MCS offers a theoretically grounded and empirically effective alternative to Euclidean cosine similarity for comparing linear probes.

Concept Bottleneck Models (CBMs) enhance interpretability by projecting learned features into a human-understandable concept space. Recent approaches leverage vision-language models to generate concept embeddings, reducing the need for manual concept annotations. However, these models suffer from a critical limitation: as the number of concepts approaches the embedding dimension, information leakage increases, enabling the model to exploit spurious or semantically irrelevant correlations and undermining interpretability. In this work, we propose Concept Flow Models (CFMs), which replace the flat bottleneck with a hierarchical, concept-driven decision tree. Each internal node in the hierarchy focuses on a localized subset of discriminative concepts, progressively narrowing the prediction scope. Our framework constructs decision hierarchies from visual embeddings, distributes semantic concepts at each hierarchy level, and trains differentiable concept weights through probabilistic tree traversal. Extensive experiments on diverse benchmarks demonstrate that CFMs match the predictive performance of flat CBMs, while substantially mitigating information leakage by reducing effective concept usage. Furthermore, CFMs yield stepwise decision flows that enable transparent and auditable model reasoning with hierarchical class structures.

This paper presents a methodology-centered transfer learning framework for fragility adaptation under domain shift, class imbalance, and scarce target labels while preserving engineering interpretability and supporting decision-making under uncertainty. Four transfer learning strategies (instance-based, parameter-based, hierarchical Bayesian, and multi-source) are demonstrated through three complementary case studies: (i) instance-based transfer learning via importance weighting, demonstrated on coastal bridge fragility using Hurricane Katrina observations; (ii) parameter-based transfer learning together with hierarchical Bayesian transfer learning, enabling partial pooling across strata and posterior uncertainty quantification, demonstrated on residential building fragility using Hurricane Ian observations; and (iii) multi-source transfer learning that fuses multiple analytical fragility models with learned source weights and regularized target-domain adaptation, demonstrated on seismic bridge fragility using observations from the 2001 Nisqually earthquake. Across these case studies, direct transfer of source models (i.e. using existing state-of-the-art models) fails under domain shift and severe class imbalance, while targeted adaptation substantially improves failure detection and predictive stability in low-data regimes. These findings highlight the need for systematic guidance on diagnostics, strategy selection, and uncertainty reporting when developing and adapting fragility models.

Sparse autoencoders (SAEs) are increasingly used to extract interpretable features from language models (LMs), yet a central question remains: when can an SAE-based explanation be treated as a faithful view of an underlying frozen LM We study this through a post-hoc generalization framework that certifies the LM via a sparse proxy, obtained by replacing a native hidden activation with its pretrained SAE reconstruction. Our framework derives an upper bound on the base model's expected risk using four measurable quantities: proxy risk, SAE reconstruction gap, concept-pool mismatch, and sparse complexity. We interpret this certificate as an operational criterion for explanatory faithfulness. In particular, a non-vacuous bound indicates that the extracted sparse features retain meaningful predictive information, while small reconstruction and mismatch errors indicate that the proxy remains behaviorally close to the original model. Empirically, we show that the bound becomes non-vacuous on GPT-2 Small, Gemma-2B, and Llama-3-8B at practical sample sizes. A detailed layerwise analysis of Llama-3-8B reveals a strong depth dependence, with later layers becoming much easier to certify, associated with both stronger local fidelity and weaker downstream error amplification. Finally, through feature-shuffling ablations, we show that the decomposition distinguishes genuine semantic alignment from mere statistical sparsity, providing a useful diagnostic for when SAE-based explanations become less reliable.

Evaluating representation similarity is fundamental to representation learning. However, existing metrics suffer from significant limitations: they lack interpretability due to shifting baselines, lack robustness to outliers, and are computationally intractable for large datasets, forcing reliance on heuristic approximations. To address this, we develop an ordinal-similarity framework, instantiated by the Triplet (TSI) and Quadruplet (QSI) Similarity Indices, which measure alignment by quantifying the consistency of ordinal relationships. We theoretically demonstrate this formulation is inherently interpretable, robust to outliers, and computationally efficient. Finally, we establish a formal equivalence between TSI and local neighborhood alignment, measured by Mutual Nearest Neighbors. Empirically, we validate these properties and show that ordinal similarity offers a scalable approach to measuring alignment, enabling practitioners to better understand and design representations.

Lung cancer is the leading cause of cancer-related mortality, with approximately 2.5 million new cases and 1.8 million deaths annually, making reliable diagnosis a clinical priority. Although deep learning models have achieved strong performance in lung cancer classification, evaluation has largely focused on predictive accuracy, leaving their decision-making processes insufficiently examined. This study compares three architecturally distinct models: a Convolutional Neural Network (CNN), a pretrained ResNet50, and a Vision Transformer (ViT), trained on the IQ-OTH/NCCD lung cancer CT dataset. Local Interpretable Model-Agnostic Explanations (LIME) were applied to investigate model reasoning. In addition to standard performance metrics, a dual-correlation framework was introduced to measure both prediction agreement and explanation agreement across model pairs. All three models achieved strong classification performance, with ResNet50 attaining 98.61% accuracy, CNN 97.91%, and ViT 93.75%, while all achieved ROC-AUC scores of 0.99. Prediction correlations exceeded 0.99 across all model pairs, indicating highly consistent outputs. However, LIME explanation correlations remained below 0.26, revealing substantial differences in the image regions used to reach those predictions. Analysis of misclassified samples further identified a consistent spatial pattern: incorrect predictions were associated with attention outside the lung parenchyma, whereas correct predictions focused primarily within lung regions. These findings demonstrate that prediction agreement is a poor proxy for reasoning consistency, and that interpretability evaluation must be treated as an independent validation criterion alongside predictive performance in clinical AI systems.

Interpreting machine-learning models has attracted increasing attention, particularly in the physical sciences, where one often seeks to understand the underlying mechanisms rather than merely make predictions. Multiple linear regression is often regarded as an interpretable alternative to more complex models, such as deep neural networks, because its predictions are expressed as explicit weighted sums of input features. However, when input features are strongly correlated, namely in the presence of multicollinearity, the learned weights can exhibit large dataset-to-dataset fluctuations and oscillatory behavior across physically similar features, making their interpretation difficult or even impossible. Although the instability of the weights under multicollinearity is well known in statistics, its consequences for physical interpretation, in particular its connection to oscillatory weights across physically similar features, have not been systematically clarified. Here, we theoretically discuss the mechanism behind this loss of interpretability by analyzing the eigenmodes of the feature correlation matrix. We show that small-eigenvalue modes associated with multicollinearity amplify fluctuations in the weights and generate oscillatory patterns that do not necessarily reflect meaningful contributions. We test this theoretical picture numerically on physics datasets and show that Ridge regularization suppresses these unstable modes, although the resulting weights must still be interpreted with caution. We further confirm the generality of our findings beyond physics by analyzing a diverse collection of publicly available datasets. Our results clarify why, in the presence of multicollinearity, physical interpretation can remain difficult even for linear regression models.

Interpretability is essential for trustworthy medical image diagnosis. However, existing concept-driven interpretable methods have key limitations: Concept Bottleneck Models (CBMs) require scoring all predefined concepts at inference time and for manual intervention, imposing a substantial burden on clinicians, while rationale-based generative approaches often select concepts by class discriminability, which can drift from diagnostic ontologies. To address these issues, we propose Neuro-Symbolic Rule Distillation (NeRD), a framework that produces efficient, ontology-grounded reasoning chains that are sufficient yet non-redundant, without manually crafting diagnostic rules. Experiments on two skin datasets demonstrate strong diagnostic performance and interpretability, and blinded expert evaluation confirms the clinical plausibility of NeRD rationales. Our method further enables a first expert-in-the-loop study for Multimodal Chain-of-Thought-based diagnosis, achieving efficient and effective concept-level intervention.

This study proposes an overall deep learning architecture for multi-class classification of plant diseases from high-resolution leaf imagery, with a particular interest in investigating the behavior of ResNet-50 and a hybrid ResNet + Vision Transformer (ViT) design. A specially gathered image database with 15,200 training images and 3,800 validation images spanning 38 classes across multiple crops, including tomato, apple, grape etc. were subjected to preprocessing steps such as resizing, normalization, and data augmentation to enhance model robustness. Multiple architectures, including ResNet-50, MobileNetV2, and EfficientNet-B0, were trained and compared with the hybrid ResNet + ViT model. All models were fine-tuned using the AdamW optimizer and cross-entropy loss, with early stopping applied to prevent overfitting and ensure generalization. Furthermore, interpretability techniques such as Grad-CAM and saliency maps were implemented to indicate disease-relevant regions, while segmentation-based analysis was performed to identify the affected parts of a leaf. For every one of the considered architectures, ResNet-50 led to the highest accuracy of 98.74%, whereas the hybrid ResNet + ViT model achieved a competitive accuracy of 98.58%, showing that the hybrid architectures were effective in capturing both local and overall information. The experimental results showcase the promise of transformer-based models to achieve highly accurate, interpretable, and computationally efficient computer-based multi-class multi-disease classification systems, providing helpful assistance for cultivation management practices as well as for precision farming.

Survival prediction plays a central role for healthcare providers and clinical researchers. Accurate risk stratification enables early intervention and improved patient management. Most existing deep survival models learn one common feature representation for all patients, which may hide important differences between patient subgroups. In contrast, a Mixture-of-Experts (MoE) framework allows different parts of the model to focus on different patient patterns, leading to more individualized representations. Therefore, in this work, we propose a mixture-of-experts enhanced adaptive deep clustering survival framework (AdaCSM) for modeling such heterogeneous survival patterns. We introduce a routing-based expert mechanism that enables conditional specialization within a parametric survival modeling framework. The proposed architecture allocates patients to specialized risk predictors dynamically while preserving the patient survival and subtype clustering objectives. We compare our method with state-of-the-art survival and deep clustering models on multiple real-world longitudinal clinical cohorts spanning diverse disease domains. The proposed method demonstrates improved predictive performance and leads to interpretable results in survival analysis.

Large language models (LLMs) often hallucinate by generating factually incorrect or unfaithful content, posing significant risks to their safe use. Detecting such hallucinations is particularly challenging under the zero-source constraint, where no model internals or external references are available, and detection must rely solely on the textual query-answer pair. In this paper, we propose Human-like Criteria Probing for Hallucination Detection (HCPD), a paradigm that emulates the multi-faceted reasoning of human evaluators. Its core is a Human-like Criteria Probing (HCP) mechanism, in which a LLM agent adaptively decomposes its judgment into a weighted set of interpretable criteria and aggregates criterion-specific scores into a final truthfulness measure. To achieve this adaptive capability, we introduce a reward-based alignment scheme using only weak supervision from semantic consistency. At inference, we employ a multi-sampling aggregation strategy to ensure robust decisions while preserving full interpretability. We further provide theoretical analysis supporting the reliability of our approach. Extensive experiments show that HCPD consistently outperforms state-of-the-art baselines, offering an effective and explainable solution for zero-source hallucination detection. Code is available at https://github.com/TRISKEL10N/HCPD.

Language-model post-training is the main stage at which model behavior is shaped, yet it still largely involves optimization of scalar rewards that summarize diverse desiderata. This abstraction gives practitioners little visibility into what their data actually teaches models, allowing spurious correlations to be learned by a model and inducing undesirable behaviors such as over-stylization and sycophancy. To address this problem, we ask: can we inspect a preference dataset before optimization and decide, at the level of concepts, which behaviors a model should be allowed to learn? Motivated by this, we introduce a data-centric post-training pipeline that uses interpretability protocols to develop statistical hypotheses for the latent concepts separating preferred from dispreferred generations, making them explicit for fine-grained user feedback. Building on this view, we unify several interpretability-based training protocols as ways of shaping rewards via feature or data interventions. Empirically, we show that our pipeline diagnoses undesirable signals in existing preference data, mitigates off-target learning, and can also help amplify or shape desired properties such as safeguards and model personality. More broadly, our results suggest that interpretability can turn post-training from optimizing opaque proxy rewards into a process of auditing and sculpting the learning signal itself.

Finding interpretable directions in language-model representations is critical for understanding and controlling model behavior. Sparse autoencoders (SAEs) have become the standard tool for this purpose, but using them as the default first lens often requires training, storing, and evaluating large overcomplete dictionaries. This bottleneck limits rapid exploration and raises a fundamental question: how much interpretable structure is already visible from activation geometry before training another neural dictionary? Our intuition is simple: many interpretable directions are selective on tokens, and these directions should look less Gaussian than random directions. We therefore revisit independent component analysis (ICA), a classical method for finding non-Gaussian directions, as a compact lens for language-model interpretability. We find that ICA has been underestimated for LLM interpretability, because prior uses often relied on off-the-shelf ICA implementations that are brittle on LLM activations and lacked systematic tools for inspecting and evaluating the recovered directions. To bridge these gaps, we introduce ICALens, the first practical workflow for stable, efficient, and auditable ICA analysis of LLM representations. It combines an optimized GPU-parallel FastICA pipeline with LLM-specific stability recipes and better fitting diagnostics, enabling efficient and reliable layer-wise analysis. Across GPT-2 Small, Gemma 2 2B, and Qwen 3.5 2B Base, ICALens efficiently recovers compact, human-interpretable directions without per-layer gradient-based dictionary training. On SAEBench, ICA is competitive with public SAEs in sparse probing and outperforms them in targeted probe perturbation under small-to-medium budgets. These results suggest that ICA should not be viewed as a weak baseline, but as an efficient and complementary first lens for exploring language-model representations.

Data attribution is a promising field in interpretability that aims to explain model behavior through the influence of its training data, with applications including debugging undesirable model behavior and training dataset curation. However, significant engineering effort is required to perform it at scale, and many cutting edge techniques lack open-source tooling and support. Bergson is an open source library that aims to enable faster progress in the field by providing a host of techniques that scale to very large language models and pre-training datasets. The library natively supports on-disk gradient stores and multi-node distributed training, and provides quality of life tools for researchers. Finally, we introduce the first open-source implementations of three leading data attribution methods: MAGIC, SOURCE, and TrackStar. The library is available at https://github.com/EleutherAI/bergson .

Generative AI emulators are increasingly used in scientific domains where we already have strong theory, benchmarks, and physical intuition. This raises a central evaluation and interpretability question: when a foundation-style model can reproduce known continuum dynamics, what internal mechanism supports that behavior, is the internal behaviour consistent with known physics, and how does it relate to where the emulator succeeds or fails? We investigate a cross-domain foundation model for continuum dynamics, Walrus by Polymathic, using mechanistic interpretability guided by physical principles. We apply a sparse autoencoder (SAE) to probe a selected layer, and address the practical challenge of triaging a large feature set (over 20,000) using enstrophy as a physically grounded metric. As a deliberately simple testbed, we focus on shear flow and compare feature recruitment across multiple shear-flow setups, i.e. parameter values in the numerical simulation. Across setups we find evidence of piecewise consistency, with subsets of features recurring in similar roles, but this structure is intermittent and does not map cleanly onto standard physical decompositions. In parallel, direct comparisons between numerical simulation and the emulator reveal systematic output-level discrepancies, including regimes where energy/structures become too diffuse or too localized. We connect parts of these discrepancies to changes in specific SAE feature usage. Our work highlights open questions for scientific foundation models: how to robustly prioritize mechanistically meaningful features, how to separate stable structure from analysis artifacts (including single-layer and SAE limitations), and how to use established benchmarks to decide when "different" internal representations are genuinely informative rather than merely effective.

This research introduces a framework for incorporating Concept Bottleneck Models (CBMs) into 3D generative architectures to address the inherent 'semantic gap' in deep geometric learning. As deep models become central to 3D content creation, explainability shifts from a peripheral feature to a fundamental requirement for trust and accountability in safety-critical domains such as healthcare and manufacturing. CBMs provide an intrinsic interpretability solution by constraining latent representations to align with human-defined concepts, yet their application to unstructured 3D data remains largely unexplored. We design, implement, and validate a formal 3D-CBM architecture that maps raw geometric inputs, including point clouds and meshes, into a multi-tiered taxonomy of interpretable primitives and functional attributes. The framework further identifies strategic datasets, such as PartNet and ShapeNet, specialized for concept-based supervision. Experimental results from a 3D part-manipulation proof-of-concept experiment demonstrate the framework's efficacy, achieving a concept prediction accuracy of 88.8% and a Chamfer Distance of 0.0115. Critically, the model enables precise test-time intervention, allowing for the interactive correction of structural errors. This work establishes a foundation for semantically-steerable 3D generation and invites further exploration into collaborative human-in-the-loop design systems.

Interpretability methods routinely use population-level summary statistics over observed model behaviour to license claims about the effects of targeted interventions on specific computations; in Pearl's terms, they treat rung-1 associational evidence as if it supported rung-2 interventional conclusions, a move whose validity is rarely tested. We examine one concrete instance: the use of routing statistics in Mixture-of-Experts (MoE) pruning, where utilization rates, activation norms, and routing weight distributions are treated as predictors of which experts can be removed without functional cost. A token-level interventional audit across three high-redundancy MoE architectures (OLMoE-1B-7B-0924, Qwen1.5-MoE-A2.7B, DeepSeek-V2-Lite) finds no observational metric predicts causal expert importance in any model: across all 60 metric-layer combinations effect sizes stay below Cohen's $d = 0.23$, and no metric is reliably positive under our corrected, dual-test criterion. A per-token routing weight control, run with identical $n$, rules out insufficient power, recovering a signal whose CI excludes zero at OLMoE's final MoE layer ($d = +0.231$, 95% CI $[+0.09, +0.37]$, $p = 0.0013$). Existing pruning methods succeed in this regime not by identifying dispensable experts but because early-layer redundancy renders most selection criteria interchangeable. Our results provide an explicit counterexample to the common inferential step from population-level observational summaries to token-level interventional claims about expert importance, and illustrate how interventional audits can calibrate the evidential standards for interpretability claims.

Interpretability increasingly treats groups of components, not individual units, as the basic object, and proposes to find them by clustering co-activation statistics. We ask whether such a cheap signal actually identifies an attention-head circuit. Adapting a sparse-autoencoder clustering recipe to attention heads -- but validating by causal ablation rather than reconstruction -- we cluster heads and then run a closure test: ablate the discovered community and compare per-example damage to matched-random controls. Across two dense 1B-scale models (Pythia 1B, OLMo 1B) and two input distributions, the communities pass closure. In a Mixture-of-Experts model (OLMoE-1B-7B), route-conditional clustering recovers a statistically real signal that nonetheless does not survive closure -- ablation improves loss, the wrong direction. Extending closure across training, attention-target selectivity and participation ratio decouple from function in both directions. We conclude that a cheap signal is a circuit proposal, not a confirmed circuit; closure is what separates them.

As Vision-Language Models are increasingly deployed in safety-critical applications, the trustworthiness of their explanations becomes crucial. Explainable AI (XAI) methods for Vision-Language Models often suffer from semantic hallucination, where attribution maps highlight prominent image regions even when prompted with incorrect text descriptions (e.g., highlighting a dog when prompted ``cat''). Although this problem is widespread, a formal mathematical analysis of XAI methods and CLIP embeddings is largely missing in the literature. We demonstrate that this phenomenon is not specific to a single architecture but is a fundamental consequence of Linear Semantic Leakage in high-dimensional embedding spaces. We propose a unified theoretical framework, Linear Semantic Attribution (LSA), which generalizes across discriminative methods. We introduce OSP, a geometric intervention that utilizes the residual property of OMP to disentangle unique semantic signals from shared concepts. We prove theoretically and demonstrate empirically that OSP minimizes hallucination by orthogonalizing the query vector against distractor concepts, rendering the attribution model blind to shared features while preserving fidelity for correct prompts. Our code is available at: https://github.com/emirhanbilgic/Orthogonal-Semantic-Projection

World models are now built on substantially different computational substrates. Latent recurrent state-space models such as PlaNet and the Dreamer family compress observations into recurrent states; token-based models such as IRIS quantize observations into a learned codebook and predict autoregressively with a transformer; and joint-embedding predictive architectures such as I-JEPA predict in a learned latent space with no pixel decoder. The interpretability methods applied to these models, including probing, activation patching, sparse autoencoders, and surprise analysis, share a common set of primitives, yet they are re-implemented from scratch for each architecture because existing hook-and-cache tooling assumes a transformer language model with no notion of actions, environment steps, or imagined rollouts. We argue that this fragmentation reflects the tooling rather than the models, and that the shared structure of world models is captured by a small typed interface. We present WorldModelLens, an open-source interpretability substrate organized around a capability-typed adapter: every model implements four required methods (encode, transition, initial state, sample) and declares a set of optional heads (decode, reward, continue, actor, critic) through an explicit capability descriptor, so that reinforcement-learning and self-supervised world models are first-class without either imitating the other. A single hook and cache layer exposes time-indexed activations, imagination rollouts, and intervention replay over this interface, allowing each analysis to be written once.

Purpose - Quotation error refers to the inconsistency between cited information and its original source. This phenomenon leads to a series of negative impacts, such as misinterpretation of the original research, undermining the academic community's collective understanding of relevant issues, and weakening the accuracy and fairness of the citation-based academic evaluation system. Existing studies have shown that quotation error is prevalent in the academic community; moreover, manual verification of quotation error is not only labor-intensive but also inefficient. Therefore, this paper proposes the task of 'automated detection of quotation errors'. Methodology - Adopting a large language model (LLM)-based approach, this paper improves detection performance from two aspects on the basis of existing research: first, employ the fine-tuning approach for LLMs to detect quotation errors; second, incorporating full-text data of the cited literature into dataset construction, and exploring the optimal scheme for building such datasets by comparing three types of full-text integration methods. Based on this, this paper further uses the TokenSHAP tool to conduct interpretability experimental analysis on the model's prediction results. Findings - The fine-tuning approach for LLMs has improved the performance in detecting quotation errors. Among the different methods for incorporating full-text information, the approach based on using the source abstract yielded the best performance. Originality - The fine-tuning approach for large language models (LLMs) is applied to the task of automated detection of quotation errors, and interpretability analysis is conducted on the model's output results.

As deep language models (DLMs) are increasingly deployed in high-stakes domains such as healthcare, understanding their decision rationale becomes paramount for ensuring trust, safety, and accountability. However, achieving this vital level of interpretability is particularly challenging when these DLMs operate as black-box systems (e.g., via APIs), where access to internal model states (e.g., parameters, gradients) is restricted. Despite numerous efforts, existing explanation methods often fail to concurrently satisfy three key desiderata: (i) inference-time efficiency, (ii) black-box compatibility without inducing out-of-distribution behavior, and (iii) comprehensible explanations grounded in the input's linguistic structure. To address these challenges, we propose a method that explains predictions of DLMs by selecting a small, informative subset of input words. We formulate this as an amortized optimization problem, enabling efficient one-shot inference without the need for input-specific search. Our selection policy is trained via REINFORCE-style policy gradients, allowing discrete word selection in a fully gradient-free setting. To enhance interpretability and align with human linguistic intuition, we integrate graph-structured knowledge into this selection process, fostering linguistically coherent subsets that result in explanations both highly informative and cognitively meaningful to end-users. We evaluated our method on diverse DLM architectures and multiple real-world datasets. It consistently identifies word subsets with enhanced discriminative power and stronger alignment with linguistically salient cues, outperforming both conventional black-box compatible methods and gradient-based approaches that are given oracle access to the black-box model's gradients for a more challenging benchmark. Our code is available at here.

As large language models are increasingly deployed in high-stakes settings, there is a growing need for tools that audit not only model outputs but also the internal computations that produce them. Circuit analysis is a central approach in mechanistic interpretability, but it is typically target-conditioned, explaining a single prompt paired with a chosen completion. This target-conditioned setup can obscure heterogeneity across a model's continuation distribution. We introduce distribution-level unsupervised feature discovery, which clusters sampled continuations using both semantic content and sequence-level mechanistic attributions, without manually specifying target outputs. Our method represents each continuation with a semantic embedding and a prefix-to-continuation attribution signature, then optimizes a rate-distortion objective that trades off semantic coherence, mechanistic consistency, and cluster granularity. Across clustering and steering analyses, the discovered clusters expose continuation modes that single-view baselines miss and provide interventional evidence that cluster signatures correspond to actionable mechanistic factors. Overall, our approach complements circuit analysis and behavioral evaluation by providing a scalable audit of the mechanisms underlying a model's continuation distribution.

Recent advances in generative AI, especially powerful Large Language Models (LLMs) and Large Reasoning Models (LRMs), raise concerns over the interpretability, safety and sustainability of these large and opaque AI models. The power of such architectures is derived not only from the scalability of deep neural networks, but also massively parallel hardware such as GPU clusters. The diffuse nature of deep neural networks gives them great function-approximation capability when provided with sufficient training data but imposes a cost in interpretability and computational efficiency. Observing that localised machine learning (ML) models tend to be more interpretable and computationally efficient than deep neural networks on small datasets, we reason by analogy that similar advantages may apply to specific localised hardware ML architectures. We argue that localised architectures with lower bandwidth but higher expressivity per node have the potential to be fundamentally more interpretable than deep neural networks running on GPU clusters while remaining competitive for smaller datasets. We then evaluate the suitability of various hardware ML paradigms for implementing such localised architectures and evaluate their per-node expressivity, energy efficiency and practical maturity of the technology required.