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Oct 7

The Imperative of Conversation Analysis in the Era of LLMs: A Survey of Tasks, Techniques, and Trends

In the era of large language models (LLMs), a vast amount of conversation logs will be accumulated thanks to the rapid development trend of language UI. Conversation Analysis (CA) strives to uncover and analyze critical information from conversation data, streamlining manual processes and supporting business insights and decision-making. The need for CA to extract actionable insights and drive empowerment is becoming increasingly prominent and attracting widespread attention. However, the lack of a clear scope for CA leads to a dispersion of various techniques, making it difficult to form a systematic technical synergy to empower business applications. In this paper, we perform a thorough review and systematize CA task to summarize the existing related work. Specifically, we formally define CA task to confront the fragmented and chaotic landscape in this field, and derive four key steps of CA from conversation scene reconstruction, to in-depth attribution analysis, and then to performing targeted training, finally generating conversations based on the targeted training for achieving the specific goals. In addition, we showcase the relevant benchmarks, discuss potential challenges and point out future directions in both industry and academia. In view of current advancements, it is evident that the majority of efforts are still concentrated on the analysis of shallow conversation elements, which presents a considerable gap between the research and business, and with the assist of LLMs, recent work has shown a trend towards research on causality and strategic tasks which are sophisticated and high-level. The analyzed experiences and insights will inevitably have broader application value in business operations that target conversation logs.

  • 6 authors
·
Sep 21, 2024 2

AI in Investment Analysis: LLMs for Equity Stock Ratings

Investment Analysis is a cornerstone of the Financial Services industry. The rapid integration of advanced machine learning techniques, particularly Large Language Models (LLMs), offers opportunities to enhance the equity rating process. This paper explores the application of LLMs to generate multi-horizon stock ratings by ingesting diverse datasets. Traditional stock rating methods rely heavily on the expertise of financial analysts, and face several challenges such as data overload, inconsistencies in filings, and delayed reactions to market events. Our study addresses these issues by leveraging LLMs to improve the accuracy and consistency of stock ratings. Additionally, we assess the efficacy of using different data modalities with LLMs for the financial domain. We utilize varied datasets comprising fundamental financial, market, and news data from January 2022 to June 2024, along with GPT-4-32k (v0613) (with a training cutoff in Sep. 2021 to prevent information leakage). Our results show that our benchmark method outperforms traditional stock rating methods when assessed by forward returns, specially when incorporating financial fundamentals. While integrating news data improves short-term performance, substituting detailed news summaries with sentiment scores reduces token use without loss of performance. In many cases, omitting news data entirely enhances performance by reducing bias. Our research shows that LLMs can be leveraged to effectively utilize large amounts of multimodal financial data, as showcased by their effectiveness at the stock rating prediction task. Our work provides a reproducible and efficient framework for generating accurate stock ratings, serving as a cost-effective alternative to traditional methods. Future work will extend to longer timeframes, incorporate diverse data, and utilize newer models for enhanced insights.

  • 4 authors
·
Oct 30, 2024

Affect Analysis in-the-wild: Valence-Arousal, Expressions, Action Units and a Unified Framework

Affect recognition based on subjects' facial expressions has been a topic of major research in the attempt to generate machines that can understand the way subjects feel, act and react. In the past, due to the unavailability of large amounts of data captured in real-life situations, research has mainly focused on controlled environments. However, recently, social media and platforms have been widely used. Moreover, deep learning has emerged as a means to solve visual analysis and recognition problems. This paper exploits these advances and presents significant contributions for affect analysis and recognition in-the-wild. Affect analysis and recognition can be seen as a dual knowledge generation problem, involving: i) creation of new, large and rich in-the-wild databases and ii) design and training of novel deep neural architectures that are able to analyse affect over these databases and to successfully generalise their performance on other datasets. The paper focuses on large in-the-wild databases, i.e., Aff-Wild and Aff-Wild2 and presents the design of two classes of deep neural networks trained with these databases. The first class refers to uni-task affect recognition, focusing on prediction of the valence and arousal dimensional variables. The second class refers to estimation of all main behavior tasks, i.e. valence-arousal prediction; categorical emotion classification in seven basic facial expressions; facial Action Unit detection. A novel multi-task and holistic framework is presented which is able to jointly learn and effectively generalize and perform affect recognition over all existing in-the-wild databases. Large experimental studies illustrate the achieved performance improvement over the existing state-of-the-art in affect recognition.

  • 2 authors
·
Mar 29, 2021

Root Cause Analysis In Microservice Using Neural Granger Causal Discovery

In recent years, microservices have gained widespread adoption in IT operations due to their scalability, maintenance, and flexibility. However, it becomes challenging for site reliability engineers (SREs) to pinpoint the root cause due to the complex relationships in microservices when facing system malfunctions. Previous research employed structured learning methods (e.g., PC-algorithm) to establish causal relationships and derive root causes from causal graphs. Nevertheless, they ignored the temporal order of time series data and failed to leverage the rich information inherent in the temporal relationships. For instance, in cases where there is a sudden spike in CPU utilization, it can lead to an increase in latency for other microservices. However, in this scenario, the anomaly in CPU utilization occurs before the latency increase, rather than simultaneously. As a result, the PC-algorithm fails to capture such characteristics. To address these challenges, we propose RUN, a novel approach for root cause analysis using neural Granger causal discovery with contrastive learning. RUN enhances the backbone encoder by integrating contextual information from time series, and leverages a time series forecasting model to conduct neural Granger causal discovery. In addition, RUN incorporates Pagerank with a personalization vector to efficiently recommend the top-k root causes. Extensive experiments conducted on the synthetic and real-world microservice-based datasets demonstrate that RUN noticeably outperforms the state-of-the-art root cause analysis methods. Moreover, we provide an analysis scenario for the sock-shop case to showcase the practicality and efficacy of RUN in microservice-based applications. Our code is publicly available at https://github.com/zmlin1998/RUN.

  • 5 authors
·
Feb 1, 2024

Recent Surge in Public Interest in Transportation: Sentiment Analysis of Baidu Apollo Go Using Weibo Data

Urban mobility and transportation systems have been profoundly transformed by the advancement of autonomous vehicle technologies. Baidu Apollo Go, a pioneer robotaxi service from the Chinese tech giant Baidu, has recently been widely deployed in major cities like Beijing and Wuhan, sparking increased conversation and offering a glimpse into the future of urban mobility. This study investigates public attitudes towards Apollo Go across China using Sentiment Analysis with a hybrid BERT model on 36,096 Weibo posts from January to July 2024. The analysis shows that 89.56\% of posts related to Apollo Go are clustered in July. From January to July, public sentiment was mostly positive, but negative comments began to rise after it became a hot topic on July 21. Spatial analysis indicates a strong correlation between provinces with high discussion intensity and those where Apollo Go operates. Initially, Hubei and Guangdong dominated online posting volume, but by July, Guangdong, Beijing, and international regions had overtaken Hubei. Attitudes varied significantly among provinces, with Xinjiang and Qinghai showing optimism and Tibet and Gansu expressing concerns about the impact on traditional taxi services. Sentiment analysis revealed that positive comments focused on technology applications and personal experiences, while negative comments centered on job displacement and safety concerns. In summary, this study highlights the divergence in public perceptions of autonomous ride-hailing services, providing valuable insights for planners, policymakers, and service providers. The model is published on Hugging Face at https://huggingface.co/wsqstar/bert-finetuned-weibo-luobokuaipao and the repository on GitHub at https://github.com/GIStudio/trb2024.

  • 9 authors
·
Aug 19, 2024 1

LogEval: A Comprehensive Benchmark Suite for Large Language Models In Log Analysis

Log analysis is crucial for ensuring the orderly and stable operation of information systems, particularly in the field of Artificial Intelligence for IT Operations (AIOps). Large Language Models (LLMs) have demonstrated significant potential in natural language processing tasks. In the AIOps domain, they excel in tasks such as anomaly detection, root cause analysis of faults, operations and maintenance script generation, and alert information summarization. However, the performance of current LLMs in log analysis tasks remains inadequately validated. To address this gap, we introduce LogEval, a comprehensive benchmark suite designed to evaluate the capabilities of LLMs in various log analysis tasks for the first time. This benchmark covers tasks such as log parsing, log anomaly detection, log fault diagnosis, and log summarization. LogEval evaluates each task using 4,000 publicly available log data entries and employs 15 different prompts for each task to ensure a thorough and fair assessment. By rigorously evaluating leading LLMs, we demonstrate the impact of various LLM technologies on log analysis performance, focusing on aspects such as self-consistency and few-shot contextual learning. We also discuss findings related to model quantification, Chinese-English question-answering evaluation, and prompt engineering. These findings provide insights into the strengths and weaknesses of LLMs in multilingual environments and the effectiveness of different prompt strategies. Various evaluation methods are employed for different tasks to accurately measure the performance of LLMs in log analysis, ensuring a comprehensive assessment. The insights gained from LogEvals evaluation reveal the strengths and limitations of LLMs in log analysis tasks, providing valuable guidance for researchers and practitioners.

  • 13 authors
·
Jul 1, 2024

Empirical analysis of Binding Precedent efficiency in the Brazilian Supreme Court via Similar Case Retrieval

Binding precedents (S\'umulas Vinculantes) constitute a juridical instrument unique to the Brazilian legal system and whose objectives include the protection of the Federal Supreme Court against repetitive demands. Studies of the effectiveness of these instruments in decreasing the Court's exposure to similar cases, however, indicate that they tend to fail in such a direction, with some of the binding precedents seemingly creating new demands. We empirically assess the legal impact of five binding precedents, 11, 14, 17, 26 and 37, at the highest court level through their effects on the legal subjects they address. This analysis is only possible through the comparison of the Court's ruling about the precedents' themes before they are created, which means that these decisions should be detected through techniques of Similar Case Retrieval. The contributions of this article are therefore twofold: on the mathematical side, we compare the uses of different methods of Natural Language Processing -- TF-IDF, LSTM, BERT, and regex -- for Similar Case Retrieval, whereas on the legal side, we contrast the inefficiency of these binding precedents with a set of hypotheses that may justify their repeated usage. We observe that the deep learning models performed significantly worse in the specific Similar Case Retrieval task and that the reasons for binding precedents to fail in responding to repetitive demand are heterogeneous and case-dependent, making it impossible to single out a specific cause.

  • 6 authors
·
Jul 9, 2024

Supernova Event Dataset: Interpreting Large Language Model's Personality through Critical Event Analysis

Large Language Models (LLMs) are increasingly integrated into everyday applications. As their influence grows, understanding their decision making and underlying personality becomes essential. In this work, we interpret model personality using our proposed Supernova Event Dataset, a novel dataset with diverse articles spanning biographies, historical events, news, and scientific discoveries. We use this dataset to benchmark LLMs on extracting and ranking key events from text, a subjective and complex challenge that requires reasoning over long-range context and modeling causal chains. We evaluate small models like Phi-4, Orca 2, and Qwen 2.5, and large, stronger models such as Claude 3.7, Gemini 2.5, and OpenAI o3, and propose a framework where another LLM acts as a judge to infer each model's personality based on its selection and classification of events. Our analysis shows distinct personality traits: for instance, Orca 2 demonstrates emotional reasoning focusing on interpersonal dynamics, while Qwen 2.5 displays a more strategic, analytical style. When analyzing scientific discovery events, Claude Sonnet 3.7 emphasizes conceptual framing, Gemini 2.5 Pro prioritizes empirical validation, and o3 favors step-by-step causal reasoning. This analysis improves model interpretability, making them user-friendly for a wide range of diverse applications.

  • 2 authors
·
Jun 13, 2025 2

Motamot: A Dataset for Revealing the Supremacy of Large Language Models over Transformer Models in Bengali Political Sentiment Analysis

Sentiment analysis is the process of identifying and categorizing people's emotions or opinions regarding various topics. Analyzing political sentiment is critical for understanding the complexities of public opinion processes, especially during election seasons. It gives significant information on voter preferences, attitudes, and current trends. In this study, we investigate political sentiment analysis during Bangladeshi elections, specifically examining how effectively Pre-trained Language Models (PLMs) and Large Language Models (LLMs) capture complex sentiment characteristics. Our study centers on the creation of the "Motamot" dataset, comprising 7,058 instances annotated with positive and negative sentiments, sourced from diverse online newspaper portals, forming a comprehensive resource for political sentiment analysis. We meticulously evaluate the performance of various PLMs including BanglaBERT, Bangla BERT Base, XLM-RoBERTa, mBERT, and sahajBERT, alongside LLMs such as Gemini 1.5 Pro and GPT 3.5 Turbo. Moreover, we explore zero-shot and few-shot learning strategies to enhance our understanding of political sentiment analysis methodologies. Our findings underscore BanglaBERT's commendable accuracy of 88.10% among PLMs. However, the exploration into LLMs reveals even more promising results. Through the adept application of Few-Shot learning techniques, Gemini 1.5 Pro achieves an impressive accuracy of 96.33%, surpassing the remarkable performance of GPT 3.5 Turbo, which stands at 94%. This underscores Gemini 1.5 Pro's status as the superior performer in this comparison.

  • 6 authors
·
Jul 28, 2024

OmniBrainBench: A Comprehensive Multimodal Benchmark for Brain Imaging Analysis Across Multi-stage Clinical Tasks

Brain imaging analysis is vital for diagnosing and treating brain disorders, and multimodal large language models (MLLMs) are increasingly assisting in that analysis. However, current brain-oriented visual question-answering (VQA) benchmarks either cover a few imaging modalities or are limited to coarse-grained pathological descriptions, hindering a comprehensive assessment of MLLMs throughout the full clinical continuum. To address these, we introduce OmniBrainBench, the first comprehensive multimodal VQA benchmark specifically designed to assess the multimodal comprehension capabilities of MLLMs in brain imaging analysis.OmniBrainBench consists of 15 distinct brain imaging modalities collected from 30 verified medical sources, yielding 9,527 validated VQA pairs and 31,706 images. It simulates clinical workflows and encompasses 15 multi-stage clinical tasks rigorously validated by a professional radiologist. Evaluation of 24 state-of-the-art models, including open-source, medical, and proprietary MLLMs, highlights the substantial challenges posed by OmniBrainBench. Our experiments reveal: (1) proprietary MLLMs (e.g., GPT-5) beat open-source and medical models but lag physicians; (2) medical MLLMs vary widely in performance; (3) open-source MLLMs trail overall but excel in specific tasks; (4) MLLMs underperform sharply in complex preoperative tasks, revealing a visual-to-clinical reasoning gap. OmniBrainBench sets a new standard for evaluating and advancing MLLMs in brain imaging analysis, highlighting gaps compared to expert clinical reasoning. We release it at benchmark \& code.

  • 5 authors
·
Nov 2, 2025

VISTA-PATH: An interactive foundation model for pathology image segmentation and quantitative analysis in computational pathology

Accurate semantic segmentation for histopathology image is crucial for quantitative tissue analysis and downstream clinical modeling. Recent segmentation foundation models have improved generalization through large-scale pretraining, yet remain poorly aligned with pathology because they treat segmentation as a static visual prediction task. Here we present VISTA-PATH, an interactive, class-aware pathology segmentation foundation model designed to resolve heterogeneous structures, incorporate expert feedback, and produce pixel-level segmentation that are directly meaningful for clinical interpretation. VISTA-PATH jointly conditions segmentation on visual context, semantic tissue descriptions, and optional expert-provided spatial prompts, enabling precise multi-class segmentation across heterogeneous pathology images. To support this paradigm, we curate VISTA-PATH Data, a large-scale pathology segmentation corpus comprising over 1.6 million image-mask-text triplets spanning 9 organs and 93 tissue classes. Across extensive held-out and external benchmarks, VISTA-PATH consistently outperforms existing segmentation foundation models. Importantly, VISTA-PATH supports dynamic human-in-the-loop refinement by propagating sparse, patch-level bounding-box annotation feedback into whole-slide segmentation. Finally, we show that the high-fidelity, class-aware segmentation produced by VISTA-PATH is a preferred model for computational pathology. It improve tissue microenvironment analysis through proposed Tumor Interaction Score (TIS), which exhibits strong and significant associations with patient survival. Together, these results establish VISTA-PATH as a foundation model that elevates pathology image segmentation from a static prediction to an interactive and clinically grounded representation for digital pathology. Source code and demo can be found at https://github.com/zhihuanglab/VISTA-PATH.

zhihuanglab Zhi Huang Lab
·
Jan 23 3

Interpretable Failure Analysis in Multi-Agent Reinforcement Learning Systems

Multi-Agent Reinforcement Learning (MARL) is increasingly deployed in safety-critical domains, yet methods for interpretable failure detection and attribution remain underdeveloped. We introduce a two-stage gradient-based framework that provides interpretable diagnostics for three critical failure analysis tasks: (1) detecting the true initial failure source (Patient-0); (2) validating why non-attacked agents may be flagged first due to domino effects; and (3) tracing how failures propagate through learned coordination pathways. Stage 1 performs interpretable per-agent failure detection via Taylor-remainder analysis of policy-gradient costs, declaring an initial Patient-0 candidate at the first threshold crossing. Stage 2 provides validation through geometric analysis of critic derivatives-first-order sensitivity and directional second-order curvature aggregated over causal windows to construct interpretable contagion graphs. This approach explains "downstream-first" detection anomalies by revealing pathways that amplify upstream deviations. Evaluated across 500 episodes in Simple Spread (3 and 5 agents) and 100 episodes in StarCraft II using MADDPG and HATRPO, our method achieves 88.2-99.4% Patient-0 detection accuracy while providing interpretable geometric evidence for detection decisions. By moving beyond black-box detection to interpretable gradient-level forensics, this framework offers practical tools for diagnosing cascading failures in safety-critical MARL systems.

  • 4 authors
·
Feb 8

MA-ProofBench: A Two-Tiered Evaluation of LLMs for Theorem Proving in Mathematical Analysis

Large Language Models (LLMs) have made notable progress in automated theorem proving, yet existing formal benchmarks remain limited in both mathematical coverage and difficulty. Most are concentrated in areas that are easier to formalize, such as algebra and elementary number theory, and provide limited coverage of subfields that require deeper reasoning, including mathematical analysis. To address this gap, we introduce MA-ProofBench, to the best of our knowledge, the first formal theorem-proving benchmark dedicated to Mathematical Analysis. The benchmark contains 200 formalized theorems covering 6 core topics and 27 subcategories, including measure and integration theory, complex analysis, and functional analysis. The problems are divided into two difficulty levels, an undergraduate level (Level I, 100 problems) and a Ph.D. qualifying level (Level II, 100 problems), to evaluate how well LLMs perform formal reasoning at different mathematical depths. Each problem is constructed through a human-led, LLM-assisted formalization pipeline followed by independent expert review, ensuring that the formal statements remain faithful to the original mathematics. We evaluate a range of recent general-purpose reasoning models and formal theorem provers on MA-ProofBench. However, most models perform poorly: even the best-performing model, GPT-5.5, achieves only 16% Pass@8 on Level I and 5% on Level II, while most models stay close to 0% on Level II. Further analysis identifies Mathlib hallucinations and incomplete proofs as the two dominant failure modes, while an evaluation on the natural-language version of the benchmark exposes a clear gap between informal and formal reasoning. MA-ProofBench is intended to serve as a reliable reference for tracking progress in formal mathematical reasoning in advanced domains.

  • 9 authors
·
Jun 10

Structural Pass Analysis in Football: Learning Pass Archetypes and Tactical Impact from Spatio-Temporal Tracking Data

The increasing availability of spatio-temporal tracking data has created new opportunities for analysing tactical behaviour in football. However, many existing approaches evaluate passes primarily through outcome-based metrics such as scoring probability or possession value, providing limited insight into how passes influence the defensive organisation of the opponent. This paper introduces a structural framework for analysing football passes based on their interaction with defensive structure. Using synchronised tracking/event data, we derive three complementary structural metrics, Line Bypass Score, Space Gain Metric, and Structural Disruption Index, that quantify how passes alter the spatial configuration of defenders. These metrics are combined into a composite measure termed Tactical Impact Value (TIV), which captures the structural influence of individual passes. Using tracking and event data from the 2022 FIFA World Cup, we analyse structural passing behaviour across multiple tactical levels. Unsupervised clustering of structural features reveals four interpretable pass archetypes: circulatory, destabilising, line-breaking, and space-expanding passes. Empirical results show that passes with higher TIV are significantly more likely to lead to territorial progression, particularly entries into the final third and penalty box. Spatial, team-level analyses further reveal distinctive structural passing styles across teams, while player-level analysis highlights the role of build-up defenders as key drivers of structural progression. In addition, analysing passer-receiver interactions identifies structurally impactful passing partnerships that amplify tactical progression within teams. Overall, the proposed framework demonstrates how structural representations derived from tracking data can reveal interpretable tactical patterns in football.

  • 2 authors
·
Mar 29

Exploring Code Analysis: Zero-Shot Insights on Syntax and Semantics with LLMs

Code analysis is fundamental in Software Engineering, supporting debugging, optimization, and security assessment. Human developers approach it through syntax parsing, static semantics inference, and dynamic reasoning. Traditional tools are effective but limited by language specificity and weak cross-language generalization. Large language models (LLMs) are promising for code tasks, yet their capabilities for fundamental code analysis remain underexplored. We structure our study around three aspects aligned with human practices: syntax parsing, static semantics inference, and dynamic reasoning. We evaluate 21 state-of-the-art LLMs across nine tasks in four languages (C, Java, Python, Solidity), including AST generation, CFG construction, data dependency, taint analysis, and flaky test reasoning. We apply a three-layer evaluation protocol (automated metrics, expert adjudication, consistency validation) to 3,124 code samples, achieving high inter-rater reliability (Cohen's kappa = 0.844-0.936) and strong human-machine agreement (Gwet's AC1 = 0.500-0.727, F1 = 0.791-0.882). While the best LLMs excel in syntax parsing (AST 90%+, expression matching 84-100%) and show promise in static analysis, their dynamic reasoning remains limited (<70%) with high data-shift sensitivity (per-project F1 varying 0-1.0). This hierarchy holds across model families and scales, suggesting fundamental rather than transient limitations. These findings show how LLMs complement traditional analyzers: they offer cross-language generalization but non-deterministic outputs needing validation, while traditional tools give deterministic guarantees but need language-specific configuration. We contribute a validated evaluation framework with comparison against traditional analyzers (Tree-sitter, Soot, Joern) and task-specific applicability tiers. Benchmark: https://github.com/mathieu0905/llm_code_analysis.git

  • 11 authors
·
May 19

Generalization in Adaptive Data Analysis and Holdout Reuse

Overfitting is the bane of data analysts, even when data are plentiful. Formal approaches to understanding this problem focus on statistical inference and generalization of individual analysis procedures. Yet the practice of data analysis is an inherently interactive and adaptive process: new analyses and hypotheses are proposed after seeing the results of previous ones, parameters are tuned on the basis of obtained results, and datasets are shared and reused. An investigation of this gap has recently been initiated by the authors in (Dwork et al., 2014), where we focused on the problem of estimating expectations of adaptively chosen functions. In this paper, we give a simple and practical method for reusing a holdout (or testing) set to validate the accuracy of hypotheses produced by a learning algorithm operating on a training set. Reusing a holdout set adaptively multiple times can easily lead to overfitting to the holdout set itself. We give an algorithm that enables the validation of a large number of adaptively chosen hypotheses, while provably avoiding overfitting. We illustrate the advantages of our algorithm over the standard use of the holdout set via a simple synthetic experiment. We also formalize and address the general problem of data reuse in adaptive data analysis. We show how the differential-privacy based approach given in (Dwork et al., 2014) is applicable much more broadly to adaptive data analysis. We then show that a simple approach based on description length can also be used to give guarantees of statistical validity in adaptive settings. Finally, we demonstrate that these incomparable approaches can be unified via the notion of approximate max-information that we introduce.

  • 6 authors
·
Sep 24, 2015

TravKAN: Fast and Interpretable Nonlinear Traversability Analysis with Kolmogorov-Arnold Networks

Traversability analysis is a fundamental capability for autonomous mobile robots operating in unstructured environments. While modern machine learning approaches such as deep neural networks and gradient-boosted trees achieve strong predictive performance, they lack interpretability and provide limited insight into the underlying terrain-robot interaction dynamics. In this paper, we propose TravKAN, a Kolmogorov-Arnold Network-based framework for fast, scalable, and interpretable traversability estimation. TravKAN represents multivariate decision functions through compositions of learnable univariate functions, enabling compact architectures and symbolic extraction of analytic expressions after training. In addition, we introduce a novel set of handcrafted features derived from the reflectivity channel of LiDAR sensors. To the best of our knowledge, reflectivity has not been systematically exploited for handcrafted traversability descriptors, despite its potential to capture material and surface properties complementary to geometric cues. We evaluate TravKAN on public, real-world urban and off-road datasets and compare it against strong baselines. TravKAN achieves strong performance across all metrics, outperforming conventional deep models and approaching the performance of XGBoost. TravKAN-Lite, i.e., TravKAN's symbolic representation, reveals meaningful nonlinear feature interactions and provides a compact, deployment-friendly, and fast analytic model. Ablation studies further show the robustness of our method to architectural variations and quantify the contribution of the proposed reflectivity-based features. These properties make TravKAN attractive for robotic systems requiring transparency, real-time computational efficiency, and interpretability in safety-critical decision-making.

  • 4 authors
·
Aug 2

Does Circuit Analysis Interpretability Scale? Evidence from Multiple Choice Capabilities in Chinchilla

Circuit analysis is a promising technique for understanding the internal mechanisms of language models. However, existing analyses are done in small models far from the state of the art. To address this, we present a case study of circuit analysis in the 70B Chinchilla model, aiming to test the scalability of circuit analysis. In particular, we study multiple-choice question answering, and investigate Chinchilla's capability to identify the correct answer label given knowledge of the correct answer text. We find that the existing techniques of logit attribution, attention pattern visualization, and activation patching naturally scale to Chinchilla, allowing us to identify and categorize a small set of `output nodes' (attention heads and MLPs). We further study the `correct letter' category of attention heads aiming to understand the semantics of their features, with mixed results. For normal multiple-choice question answers, we significantly compress the query, key and value subspaces of the head without loss of performance when operating on the answer labels for multiple-choice questions, and we show that the query and key subspaces represent an `Nth item in an enumeration' feature to at least some extent. However, when we attempt to use this explanation to understand the heads' behaviour on a more general distribution including randomized answer labels, we find that it is only a partial explanation, suggesting there is more to learn about the operation of `correct letter' heads on multiple choice question answering.

  • 6 authors
·
Jul 18, 2023

Automating Feedback Analysis in Surgical Training: Detection, Categorization, and Assessment

This work introduces the first framework for reconstructing surgical dialogue from unstructured real-world recordings, which is crucial for characterizing teaching tasks. In surgical training, the formative verbal feedback that trainers provide to trainees during live surgeries is crucial for ensuring safety, correcting behavior immediately, and facilitating long-term skill acquisition. However, analyzing and quantifying this feedback is challenging due to its unstructured and specialized nature. Automated systems are essential to manage these complexities at scale, allowing for the creation of structured datasets that enhance feedback analysis and improve surgical education. Our framework integrates voice activity detection, speaker diarization, and automated speech recaognition, with a novel enhancement that 1) removes hallucinations (non-existent utterances generated during speech recognition fueled by noise in the operating room) and 2) separates speech from trainers and trainees using few-shot voice samples. These aspects are vital for reconstructing accurate surgical dialogues and understanding the roles of operating room participants. Using data from 33 real-world surgeries, we demonstrated the system's capability to reconstruct surgical teaching dialogues and detect feedback instances effectively (F1 score of 0.79+/-0.07). Moreover, our hallucination removal step improves feedback detection performance by ~14%. Evaluation on downstream clinically relevant tasks of predicting Behavioral Adjustment of trainees and classifying Technical feedback, showed performances comparable to manual annotations with F1 scores of 0.82+/0.03 and 0.81+/0.03 respectively. These results highlight the effectiveness of our framework in supporting clinically relevant tasks and improving over manual methods.

  • 7 authors
·
Dec 1, 2024

Convergence of Iterative Water-Filling in Multi-User Non-Cooperative Power Control: A Comprehensive Analysis for Sequential, Simultaneous, and Asynchronous Schemes

Non-cooperative game theory provides a robust framework for analyzing distributed resource allocation in multi-user wireless networks, with Iterative Water-Filling (IWF) emerging as a canonical solution for power control problems. Although classical fixed-point theorems guarantee the existence of a Nash Equilibrium (NE) under mild concavity and compactness conditions, the convergence of practical iterative algorithms to that equilibrium remains a challenging endeavor. This challenge intensifies under varying update schedules, interference regimes, and imperfections such as channel estimation errors or feedback delay. In this paper, we present an in-depth examination of IWF in multi-user systems under three different update schemes: (1) synchronous sequential updates, (2) synchronous simultaneous updates, and (3) totally asynchronous updates. We first formulate the water-filling operator in a multi-carrier environment, then recast the iterative process as a fixed-point problem. Using contraction mapping principles, we demonstrate sufficient conditions under which IWF converges to a unique NE and highlight how spectral radius constraints, diagonal dominance, and careful step-size selection are pivotal for guaranteeing convergence. We further discuss robustness to measurement noise, partial updates, and network scaling to emphasize the practical viability of these schemes. This comprehensive analysis unifies diverse threads in the literature while offering novel insights into asynchronous implementations. Our findings enable network designers to ascertain system parameters that foster both stable convergence and efficient spectrum usage.

  • 1 authors
·
Feb 17, 2025

Causal Prompting for Implicit Sentiment Analysis with Large Language Models

Implicit Sentiment Analysis (ISA) aims to infer sentiment that is implied rather than explicitly stated, requiring models to perform deeper reasoning over subtle contextual cues. While recent prompting-based methods using Large Language Models (LLMs) have shown promise in ISA, they often rely on majority voting over chain-of-thought (CoT) reasoning paths without evaluating their causal validity, making them susceptible to internal biases and spurious correlations. To address this challenge, we propose CAPITAL, a causal prompting framework that incorporates front-door adjustment into CoT reasoning. CAPITAL decomposes the overall causal effect into two components: the influence of the input prompt on the reasoning chains, and the impact of those chains on the final output. These components are estimated using encoder-based clustering and the NWGM approximation, with a contrastive learning objective used to better align the encoder's representation with the LLM's reasoning space. Experiments on benchmark ISA datasets with three LLMs demonstrate that CAPITAL consistently outperforms strong prompting baselines in both accuracy and robustness, particularly under adversarial conditions. This work offers a principled approach to integrating causal inference into LLM prompting and highlights its benefits for bias-aware sentiment reasoning. The source code and case study are available at: https://github.com/whZ62/CAPITAL.

  • 10 authors
·
Jun 30, 2025

Automated Grain Boundary (GB) Segmentation and Microstructural Analysis in 347H Stainless Steel Using Deep Learning and Multimodal Microscopy

Austenitic 347H stainless steel offers superior mechanical properties and corrosion resistance required for extreme operating conditions such as high temperature. The change in microstructure due to composition and process variations is expected to impact material properties. Identifying microstructural features such as grain boundaries thus becomes an important task in the process-microstructure-properties loop. Applying convolutional neural network (CNN) based deep-learning models is a powerful technique to detect features from material micrographs in an automated manner. Manual labeling of the images for the segmentation task poses a major bottleneck for generating training data and labels in a reliable and reproducible way within a reasonable timeframe. In this study, we attempt to overcome such limitations by utilizing multi-modal microscopy to generate labels directly instead of manual labeling. We combine scanning electron microscopy (SEM) images of 347H stainless steel as training data and electron backscatter diffraction (EBSD) micrographs as pixel-wise labels for grain boundary detection as a semantic segmentation task. We demonstrate that despite producing instrumentation drift during data collection between two modes of microscopy, this method performs comparably to similar segmentation tasks that used manual labeling. Additionally, we find that naïve pixel-wise segmentation results in small gaps and missing boundaries in the predicted grain boundary map. By incorporating topological information during model training, the connectivity of the grain boundary network and segmentation performance is improved. Finally, our approach is validated by accurate computation on downstream tasks of predicting the underlying grain morphology distributions which are the ultimate quantities of interest for microstructural characterization.

  • 8 authors
·
May 11, 2023

LabRobFail: A Benchmark for Robotic Failure Analysis in Chemical Self-driving Laboratory

The deployment of embodied agents in self-driving laboratories could accelerate scientific discovery, yet their reliability is constrained by the irreversible and safety-critical nature of chemical experiments. Progress is further hindered by scarce failure data and the lack of fine-grained evaluation protocols. To address these challenges, we introduce LabRobFail, a failure-centric framework for learning and evaluating robotic failure analysis in chemical laboratories. LabRobFail-Sim injects controllable failures at the control, physics, and semantic levels, enabling the construction of LabRobFail-Data, which contains over 20,000 trajectories across 70+ task scenarios, five failure categories, and 11 fine-grained failure types. LabRobFail-Bench evaluates six capabilities spanning task understanding, failure detection, temporal localization, severity assessment, failure classification, and actionable correction. We further develop LabRobFail-VLM, a domain-specialized vision-language model that generates structured failure diagnoses and recovery instructions. On seen environments, it achieves 90.83% failure-detection accuracy and 77.21% temporal-localization accuracy, substantially outperforming general-purpose VLMs. When integrated as a real-time supervisor, it improves downstream task success rates by 4-16 percentage points, demonstrating the value of fine-grained failure understanding for closed-loop recovery and reliable laboratory autonomy. Our code and data are available at https://github.com/Su-ISE-2001/SciRobo

  • 11 authors
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Jul 28

Exploring Progress in Multivariate Time Series Forecasting: Comprehensive Benchmarking and Heterogeneity Analysis

Multivariate Time Series (MTS) analysis is crucial to understanding and managing complex systems, such as traffic and energy systems, and a variety of approaches to MTS forecasting have been proposed recently. However, we often observe inconsistent or seemingly contradictory performance findings across different studies. This hinders our understanding of the merits of different approaches and slows down progress. We address the need for means of assessing MTS forecasting proposals reliably and fairly, in turn enabling better exploitation of MTS as seen in different applications. Specifically, we first propose BasicTS+, a benchmark designed to enable fair, comprehensive, and reproducible comparison of MTS forecasting solutions. BasicTS+ establishes a unified training pipeline and reasonable settings, enabling an unbiased evaluation. Second, we identify the heterogeneity across different MTS as an important consideration and enable classification of MTS based on their temporal and spatial characteristics. Disregarding this heterogeneity is a prime reason for difficulties in selecting the most promising technical directions. Third, we apply BasicTS+ along with rich datasets to assess the capabilities of more than 45 MTS forecasting solutions. This provides readers with an overall picture of the cutting-edge research on MTS forecasting. The code can be accessed at https://github.com/GestaltCogTeam/BasicTS.

  • 13 authors
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Oct 16, 2024

GenoTEX: A Benchmark for Automated Gene Expression Data Analysis in Alignment with Bioinformaticians

Recent advancements in machine learning have significantly improved the identification of disease-associated genes from gene expression datasets. However, these processes often require extensive expertise and manual effort, limiting their scalability. Large Language Model (LLM)-based agents have shown promise in automating these tasks due to their increasing problem-solving abilities. To support the evaluation and development of such methods, we introduce GenoTEX, a benchmark dataset for the automated analysis of gene expression data. GenoTEX provides annotated code and results for solving a wide range of gene identification problems, encompassing dataset selection, preprocessing, and statistical analysis, in a pipeline that follows computational genomics standards. The benchmark includes expert-curated annotations from bioinformaticians to ensure accuracy and reliability. To provide baselines for these tasks, we present GenoAgent, a team of LLM-based agents that adopt a multi-step programming workflow with flexible self-correction, to collaboratively analyze gene expression datasets. Our experiments demonstrate the potential of LLM-based methods in analyzing genomic data, while error analysis highlights the challenges and areas for future improvement. We propose GenoTEX as a promising resource for benchmarking and enhancing automated methods for gene expression data analysis. The benchmark is available at https://github.com/Liu-Hy/GenoTex.

  • 4 authors
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Jun 21, 2024

From Codicology to Code: A Comparative Study of Transformer and YOLO-based Detectors for Layout Analysis in Historical Documents

Robust Document Layout Analysis (DLA) is critical for the automated processing and understanding of historical documents with complex page organizations. This paper benchmarks five state-of-the-art object detection architectures on three annotated datasets representing a spectrum of codicological complexity: The e-NDP, a corpus of Parisian medieval registers (1326-1504); CATMuS, a diverse multiclass dataset derived from various medieval and modern sources (ca.12th-17th centuries) and HORAE, a corpus of decorated books of hours (ca.13th-16th centuries). We evaluate two Transformer-based models (Co-DETR, Grounding DINO) against three YOLO variants (AABB, OBB, and YOLO-World). Our findings reveal significant performance variations dependent on model architecture, data set characteristics, and bounding box representation. In the e-NDP dataset, Co-DETR achieves state-of-the-art results (0.752 mAP@.50:.95), closely followed by YOLOv11X-OBB (0.721). Conversely, on the more complex CATMuS and HORAE datasets, the CNN-based YOLOv11x-OBB significantly outperforms all other models (0.564 and 0.568, respectively). This study unequivocally demonstrates that using Oriented Bounding Boxes (OBB) is not a minor refinement but a fundamental requirement for accurately modeling the non-Cartesian nature of historical manuscripts. We conclude that a key trade-off exists between the global context awareness of Transformers, ideal for structured layouts, and the superior generalization of CNN-OBB models for visually diverse and complex documents.

  • 1 authors
·
Jun 25, 2025

FT-ClipAct: Resilience Analysis of Deep Neural Networks and Improving their Fault Tolerance using Clipped Activation

Deep Neural Networks (DNNs) are widely being adopted for safety-critical applications, e.g., healthcare and autonomous driving. Inherently, they are considered to be highly error-tolerant. However, recent studies have shown that hardware faults that impact the parameters of a DNN (e.g., weights) can have drastic impacts on its classification accuracy. In this paper, we perform a comprehensive error resilience analysis of DNNs subjected to hardware faults (e.g., permanent faults) in the weight memory. The outcome of this analysis is leveraged to propose a novel error mitigation technique which squashes the high-intensity faulty activation values to alleviate their impact. We achieve this by replacing the unbounded activation functions with their clipped versions. We also present a method to systematically define the clipping values of the activation functions that result in increased resilience of the networks against faults. We evaluate our technique on the AlexNet and the VGG-16 DNNs trained for the CIFAR-10 dataset. The experimental results show that our mitigation technique significantly improves the resilience of the DNNs to faults. For example, the proposed technique offers on average 68.92% improvement in the classification accuracy of resilience-optimized VGG-16 model at 1e-5 fault rate, when compared to the base network without any fault mitigation.

  • 3 authors
·
Dec 2, 2019

Neuron-Level Analysis of Cultural Understanding in Large Language Models

As large language models (LLMs) are increasingly deployed worldwide, ensuring their fair and comprehensive cultural understanding is important. However, LLMs exhibit cultural bias and limited awareness of underrepresented cultures, while the mechanisms underlying their cultural understanding remain underexplored. To fill this gap, we conduct a neuron-level analysis to identify neurons that drive cultural behavior, introducing a gradient-based scoring method with additional filtering for precise refinement. We identify both culture-general neurons contributing to cultural understanding regardless of cultures, and culture-specific neurons tied to an individual culture. These neurons account for less than 1% of all neurons and are concentrated in shallow to middle MLP layers. We validate their role by showing that suppressing them substantially degrades performance on cultural benchmarks (by up to 30%), while performance on general natural language understanding (NLU) benchmarks remains largely unaffected. Moreover, we show that culture-specific neurons support knowledge of not only the target culture, but also related cultures. Finally, we demonstrate that training on NLU benchmarks can diminish models' cultural understanding when we update modules containing many culture-general neurons. These findings provide insights into the internal mechanisms of LLMs and offer practical guidance for model training and engineering. Our code is available at https://github.com/ynklab/CULNIG

  • 4 authors
·
Oct 9, 2025

Developing a Comprehensive Framework for Sentiment Analysis in Turkish

In this thesis, we developed a comprehensive framework for sentiment analysis that takes its many aspects into account mainly for Turkish. We have also proposed several approaches specific to sentiment analysis in English only. We have accordingly made five major and three minor contributions. We generated a novel and effective feature set by combining unsupervised, semi-supervised, and supervised metrics. We then fed them as input into classical machine learning methods, and outperformed neural network models for datasets of different genres in both Turkish and English. We created a polarity lexicon with a semi-supervised domain-specific method, which has been the first approach applied for corpora in Turkish. We performed a fine morphological analysis for the sentiment classification task in Turkish by determining the polarities of morphemes. This can be adapted to other morphologically-rich or agglutinative languages as well. We have built a novel neural network architecture, which combines recurrent and recursive neural network models for English. We built novel word embeddings that exploit sentiment, syntactic, semantic, and lexical characteristics for both Turkish and English. We also redefined context windows as subclauses in modelling word representations in English. This can also be applied to other linguistic fields and natural language processing tasks. We have achieved state-of-the-art and significant results for all these original approaches. Our minor contributions include methods related to aspect-based sentiment in Turkish, parameter redefinition in the semi-supervised approach, and aspect term extraction techniques for English. This thesis can be considered the most detailed and comprehensive study made on sentiment analysis in Turkish as of July, 2020. Our work has also contributed to the opinion classification problem in English.

  • 1 authors
·
Nov 29, 2025

Automated Behavioral Analysis Using Instance Segmentation

Animal behavior analysis plays a crucial role in various fields, such as life science and biomedical research. However, the scarcity of available data and the high cost associated with obtaining a large number of labeled datasets pose significant challenges. In this research, we propose a novel approach that leverages instance segmentation-based transfer learning to address these issues. By capitalizing on fine-tuning the classification head of the instance segmentation network, we enable the tracking of multiple animals and facilitate behavior analysis in laboratory-recorded videos. To demonstrate the effectiveness of our method, we conducted a series of experiments, revealing that our approach achieves exceptional performance levels, comparable to human capabilities, across a diverse range of animal behavior analysis tasks. Moreover, we emphasize the practicality of our solution, as it requires only a small number of labeled images for training. To facilitate the adoption and further development of our method, we have developed an open-source implementation named Annolid (An annotation and instance segmentation-based multiple animal tracking and behavior analysis package). The codebase is publicly available on GitHub at https://github.com/cplab/annolid. This resource serves as a valuable asset for researchers and practitioners interested in advancing animal behavior analysis through state-of-the-art techniques.

  • 4 authors
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Dec 12, 2023

PsychēChat: An Empathic Framework Focused on Emotion Shift Tracking and Safety Risk Analysis in Psychological Counseling

Large language models (LLMs) have demonstrated notable advancements in psychological counseling. However, existing models generally do not explicitly model seekers' emotion shifts across counseling sessions, a core focus in classical psychological schools. Moreover, how to align counselor models' responses with these emotion shifts while proactively mitigating safety risks remains underexplored. To bridge these gaps, we propose PsychēChat, which explicitly integrates emotion shift tracking and safety risk analysis for psychological counseling. Specifically, we employ interactive role-playing to synthesize counselor--seeker dialogues, incorporating two modules: Emotion Management Module, to capture seekers' current emotions and emotion shifts; and Risk Control Module, to anticipate seekers' subsequent reactions and identify potential risks. Furthermore, we introduce two modeling paradigms. The Agent Mode structures emotion management, risk control, and counselor responses into a collaborative multi-agent pipeline. The LLM Mode integrates these stages into a unified chain-of-thought for end-to-end inference, balancing efficiency and performance. Extensive experiments, including interactive scoring, dialogue-level evaluation, and human assessment, demonstrate that PsychēChat outperforms existing methods for emotional insight and safety control.

  • 7 authors
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Jan 18

Enhancing Reverse Engineering: Investigating and Benchmarking Large Language Models for Vulnerability Analysis in Decompiled Binaries

Security experts reverse engineer (decompile) binary code to identify critical security vulnerabilities. The limited access to source code in vital systems - such as firmware, drivers, and proprietary software used in Critical Infrastructures (CI) - makes this analysis even more crucial on the binary level. Even with available source code, a semantic gap persists after compilation between the source and the binary code executed by the processor. This gap may hinder the detection of vulnerabilities in source code. That being said, current research on Large Language Models (LLMs) overlooks the significance of decompiled binaries in this area by focusing solely on source code. In this work, we are the first to empirically uncover the substantial semantic limitations of state-of-the-art LLMs when it comes to analyzing vulnerabilities in decompiled binaries, largely due to the absence of relevant datasets. To bridge the gap, we introduce DeBinVul, a novel decompiled binary code vulnerability dataset. Our dataset is multi-architecture and multi-optimization, focusing on C/C++ due to their wide usage in CI and association with numerous vulnerabilities. Specifically, we curate 150,872 samples of vulnerable and non-vulnerable decompiled binary code for the task of (i) identifying; (ii) classifying; (iii) describing vulnerabilities; and (iv) recovering function names in the domain of decompiled binaries. Subsequently, we fine-tune state-of-the-art LLMs using DeBinVul and report on a performance increase of 19%, 24%, and 21% in the capabilities of CodeLlama, Llama3, and CodeGen2 respectively, in detecting binary code vulnerabilities. Additionally, using DeBinVul, we report a high performance of 80-90% on the vulnerability classification task. Furthermore, we report improved performance in function name recovery and vulnerability description tasks.

  • 6 authors
·
Nov 7, 2024

Towards Unified Vision Language Models for Forest Ecological Analysis in Earth Observation

Recent progress in vision language models (VLMs) has enabled remarkable perception and reasoning capabilities, yet their potential for scientific regression in Earth Observation (EO) remains largely unexplored. Existing EO datasets mainly emphasize semantic understanding tasks such as captioning or classification, lacking benchmarks that align multimodal perception with measurable biophysical variables. To fill this gap, we present REO-Instruct, the first unified benchmark designed for both descriptive and regression tasks in EO. REO-Instruct establishes a cognitively interpretable logic chain in forest ecological scenario (human activity,land-cover classification, ecological patch counting, above-ground biomass (AGB) regression), bridging qualitative understanding and quantitative prediction. The dataset integrates co-registered Sentinel-2 and ALOS-2 imagery with structured textual annotations generated and validated through a hybrid human AI pipeline. Comprehensive evaluation protocols and baseline results across generic VLMs reveal that current models struggle with numeric reasoning, highlighting an essential challenge for scientific VLMs. REO-Instruct offers a standardized foundation for developing and assessing next-generation geospatial models capable of both description and scientific inference. The project page are publicly available at https://github.com/zhu-xlab/REO-Instruct{REO-Instruct}.

  • 2 authors
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Nov 19, 2025

The Radio Sky at Meter Wavelengths: m-Mode Analysis Imaging with the Owens Valley Long Wavelength Array

A host of new low-frequency radio telescopes seek to measure the 21-cm transition of neutral hydrogen from the early universe. These telescopes have the potential to directly probe star and galaxy formation at redshifts 20 gtrsim z gtrsim 7, but are limited by the dynamic range they can achieve against foreground sources of low-frequency radio emission. Consequently, there is a growing demand for modern, high-fidelity maps of the sky at frequencies below 200 MHz for use in foreground modeling and removal. We describe a new widefield imaging technique for drift-scanning interferometers, Tikhonov-regularized m-mode analysis imaging. This technique constructs images of the entire sky in a single synthesis imaging step with exact treatment of widefield effects. We describe how the CLEAN algorithm can be adapted to deconvolve maps generated by m-mode analysis imaging. We demonstrate Tikhonov-regularized m-mode analysis imaging using the Owens Valley Long Wavelength Array (OVRO-LWA) by generating 8 new maps of the sky north of δ=-30^circ with 15 arcmin angular resolution, at frequencies evenly spaced between 36.528 MHz and 73.152 MHz, and sim800 mJy/beam thermal noise. These maps are a 10-fold improvement in angular resolution over existing full-sky maps at comparable frequencies, which have angular resolutions ge 2^circ. Each map is constructed exclusively from interferometric observations and does not represent the globally averaged sky brightness. Future improvements will incorporate total power radiometry, improved thermal noise, and improved angular resolution -- due to the planned expansion of the OVRO-LWA to 2.6 km baselines. These maps serve as a first step on the path to the use of more sophisticated foreground filters in 21-cm cosmology incorporating the measured angular and frequency structure of all foreground contaminants.

  • 20 authors
·
Oct 25, 2017

Temporal-spatial Correlation Attention Network for Clinical Data Analysis in Intensive Care Unit

In recent years, medical information technology has made it possible for electronic health record (EHR) to store fairly complete clinical data. This has brought health care into the era of "big data". However, medical data are often sparse and strongly correlated, which means that medical problems cannot be solved effectively. With the rapid development of deep learning in recent years, it has provided opportunities for the use of big data in healthcare. In this paper, we propose a temporal-saptial correlation attention network (TSCAN) to handle some clinical characteristic prediction problems, such as predicting death, predicting length of stay, detecting physiologic decline, and classifying phenotypes. Based on the design of the attention mechanism model, our approach can effectively remove irrelevant items in clinical data and irrelevant nodes in time according to different tasks, so as to obtain more accurate prediction results. Our method can also find key clinical indicators of important outcomes that can be used to improve treatment options. Our experiments use information from the Medical Information Mart for Intensive Care (MIMIC-IV) database, which is open to the public. Finally, we have achieved significant performance benefits of 2.0\% (metric) compared to other SOTA prediction methods. We achieved a staggering 90.7\% on mortality rate, 45.1\% on length of stay. The source code can be find: https://github.com/yuyuheintju/TSCAN.

  • 6 authors
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Jun 2, 2023

SeNMo: A Self-Normalizing Deep Learning Model for Enhanced Multi-Omics Data Analysis in Oncology

Multi-omics research has enhanced our understanding of cancer heterogeneity and progression. Investigating molecular data through multi-omics approaches is crucial for unraveling the complex biological mechanisms underlying cancer, thereby enabling effective diagnosis, treatment, and prevention strategies. However, predicting patient outcomes through integration of all available multi-omics data is an under-study research direction. Here, we present SeNMo (Self-normalizing Network for Multi-omics), a deep neural network trained on multi-omics data across 33 cancer types. SeNMo is efficient in handling multi-omics data characterized by high-width (many features) and low-length (fewer samples) attributes. We trained SeNMo for the task of overall survival using pan-cancer data involving 33 cancer sites from Genomics Data Commons (GDC). The training data includes gene expression, DNA methylation, miRNA expression, DNA mutations, protein expression modalities, and clinical data. We evaluated the model's performance in predicting overall survival using concordance index (C-Index). SeNMo performed consistently well in training regime, with the validation C-Index of 0.76 on GDC's public data. In the testing regime, SeNMo performed with a C-Index of 0.758 on a held-out test set. The model showed an average accuracy of 99.8% on the task of classifying the primary cancer type on the pan-cancer test cohort. SeNMo proved to be a mini-foundation model for multi-omics oncology data because it demonstrated robust performance, and adaptability not only across molecular data types but also on the classification task of predicting the primary cancer type of patients. SeNMo can be further scaled to any cancer site and molecular data type. We believe SeNMo and similar models are poised to transform the oncology landscape, offering hope for more effective, efficient, and patient-centric cancer care.

  • 9 authors
·
May 13, 2024

ImageRAG: Enhancing Ultra High Resolution Remote Sensing Imagery Analysis with ImageRAG

Ultra High Resolution (UHR) remote sensing imagery (RSI) (e.g. 100,000 times 100,000 pixels or more) poses a significant challenge for current Remote Sensing Multimodal Large Language Models (RSMLLMs). If choose to resize the UHR image to standard input image size, the extensive spatial and contextual information that UHR images contain will be neglected. Otherwise, the original size of these images often exceeds the token limits of standard RSMLLMs, making it difficult to process the entire image and capture long-range dependencies to answer the query based on the abundant visual context. In this paper, we introduce ImageRAG for RS, a training-free framework to address the complexities of analyzing UHR remote sensing imagery. By transforming UHR remote sensing image analysis task to image's long context selection task, we design an innovative image contextual retrieval mechanism based on the Retrieval-Augmented Generation (RAG) technique, denoted as ImageRAG. ImageRAG's core innovation lies in its ability to selectively retrieve and focus on the most relevant portions of the UHR image as visual contexts that pertain to a given query. Fast path and slow path are proposed in this framework to handle this task efficiently and effectively. ImageRAG allows RSMLLMs to manage extensive context and spatial information from UHR RSI, ensuring the analysis is both accurate and efficient. Codebase will be released in https://github.com/om-ai-lab/ImageRAG

  • 10 authors
·
Nov 12, 2024

Dynamic Factor Analysis of Price Movements in the Philippine Stock Exchange

The intricate dynamics of stock markets have led to extensive research on models that are able to effectively explain their inherent complexities. This study leverages the econometrics literature to explore the dynamic factor model as an interpretable model with sufficient predictive capabilities for capturing essential market phenomena. Although the model has been extensively applied for predictive purposes, this study focuses on analyzing the extracted loadings and common factors as an alternative framework for understanding stock price dynamics. The results reveal novel insights into traditional market theories when applied to the Philippine Stock Exchange using the Kalman method and maximum likelihood estimation, with subsequent validation against the capital asset pricing model. Notably, a one-factor model extracts a common factor representing systematic or market dynamics similar to the composite index, whereas a two-factor model extracts common factors representing market trends and volatility. Furthermore, an application of the model for nowcasting the growth rates of the Philippine gross domestic product highlights the potential of the extracted common factors as viable real-time market indicators, yielding over a 34% decrease in the out-of-sample prediction error. Overall, the results underscore the value of dynamic factor analysis in gaining a deeper understanding of market price movement dynamics.

  • 6 authors
·
Oct 8, 2025

MamNet: A Novel Hybrid Model for Time-Series Forecasting and Frequency Pattern Analysis in Network Traffic

The abnormal fluctuations in network traffic may indicate potential security threats or system failures. Therefore, efficient network traffic prediction and anomaly detection methods are crucial for network security and traffic management. This paper proposes a novel network traffic prediction and anomaly detection model, MamNet, which integrates time-domain modeling and frequency-domain feature extraction. The model first captures the long-term dependencies of network traffic through the Mamba module (time-domain modeling), and then identifies periodic fluctuations in the traffic using Fourier Transform (frequency-domain feature extraction). In the feature fusion layer, multi-scale information is integrated to enhance the model's ability to detect network traffic anomalies. Experiments conducted on the UNSW-NB15 and CAIDA datasets demonstrate that MamNet outperforms several recent mainstream models in terms of accuracy, recall, and F1-Score. Specifically, it achieves an improvement of approximately 2% to 4% in detection performance for complex traffic patterns and long-term trend detection. The results indicate that MamNet effectively captures anomalies in network traffic across different time scales and is suitable for anomaly detection tasks in network security and traffic management. Future work could further optimize the model structure by incorporating external network event information, thereby improving the model's adaptability and stability in complex network environments.

  • 7 authors
·
Jun 30, 2025

Can MLLMs Read Students' Minds? Unpacking Multimodal Error Analysis in Handwritten Math

Assessing student handwritten scratchwork is crucial for personalized educational feedback but presents unique challenges due to diverse handwriting, complex layouts, and varied problem-solving approaches. Existing educational NLP primarily focuses on textual responses and neglects the complexity and multimodality inherent in authentic handwritten scratchwork. Current multimodal large language models (MLLMs) excel at visual reasoning but typically adopt an "examinee perspective", prioritizing generating correct answers rather than diagnosing student errors. To bridge these gaps, we introduce ScratchMath, a novel benchmark specifically designed for explaining and classifying errors in authentic handwritten mathematics scratchwork. Our dataset comprises 1,720 mathematics samples from Chinese primary and middle school students, supporting two key tasks: Error Cause Explanation (ECE) and Error Cause Classification (ECC), with seven defined error types. The dataset is meticulously annotated through rigorous human-machine collaborative approaches involving multiple stages of expert labeling, review, and verification. We systematically evaluate 16 leading MLLMs on ScratchMath, revealing significant performance gaps relative to human experts, especially in visual recognition and logical reasoning. Proprietary models notably outperform open-source models, with large reasoning models showing strong potential for error explanation. All evaluation data and frameworks are publicly available to facilitate further research.

  • 9 authors
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Mar 25 2

Deciphering the "chemical" nature of the exotic isotopes of Hydrogen by the MC-QTAIM analysis: The positively charged Muon and the Muonic Helium as new members of the Periodic Table

This report is a primarily survey on the chemical nature of some exotic species containing the positively charged muon and the muonic Helium, i.e., the negatively charged muon plus helium nucleus, as exotic isotopes of hydrogen, using the newly developed multi-component quantum theory of atoms in molecules (MC-QTAIM) analysis, employing ab initio non-Born-Oppenhiemer wavefunctions. Accordingly, the "atoms in molecules" analysis performed on various asymmetric exotic isotopomers of hydrogen molecule, recently detected experimentally [Science 331, 448 (2011)], demonstrates that both the exotic isotopes are capable of forming atoms in molecules and retaining the identity of hydrogen atom. Various derived properties of atomic basins containing muonic helium cast no doubt that apart from its short life time, it is a heavier isotope of hydrogen while the properties of basins containing the positively charged muon are more remote from those of the orthodox hydrogen basins, capable of appreciable donation of electrons as well as large charge polarization; however, with some tolerance, they may be categorized also as hydrogen basins though with a smaller electronegativity. All in all, present study also clearly demonstrates that the MC-QTAIM analysis is an efficient approach to decipher the chemical nature of species containing exotic constituents, hard to be elucidated by experimental and/or alternative theoretical schemes.

  • 2 authors
·
Nov 25, 2013

Decoding Alignment without Encoding Alignment: A critique of similarity analysis in neuroscience

Decoding approaches are widely used in neuroscience and machine learning to compare stimulus representations across neural systems, such as different brain regions, organisms, and deep learning models. Popular methods include decoding (perceptual) manifolds and alignment metrics such as Representational Similarity Analysis (RSA) and Dynamic Similarity Analysis (DSA), where similarity in decoding representations is interpreted as evidence for similar computation. This paper demonstrates a fundamental weakness behind this approach: it is misleading to assume that representational geometry is representative of a neuronal population as a whole, when such representations may actually be shaped by a very small subset of neurons. We show that the complementary encoding paradigm addresses this issue directly: it characterizes how neurons are organized globally in terms of their responses to a set of data, providing insight into how the decoding representation is implemented by neurons within a population. We demonstrate across experiments in biological systems and deep learning models that (i) surprisingly, similar decoding behavior and high representational alignment can arise from small, non-representative subpopulations of neurons; and critically, (ii) alignment metrics are insensitive to encoding manifold topology (how function is distributed across neurons), despite this being a key signature of differentiation across biological systems. A controlled MNIST experiment provides causal evidence: decoding metrics remain unchanged even when encoding topology is causally manipulated via the training loss. Overall, similarity in decoding behavior, as measured by classic alignment metrics, does not imply similarity in function or computation, motivating the use of encoding manifolds as a complementary tool for comparing neural systems.

  • 5 authors
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May 6