Daily Papers

The increasing volume of textual data poses challenges in reading and comprehending large documents, particularly for scholars who need to extract useful information from research articles. Automatic text summarization has emerged as a powerful tool to condense lengthy documents into concise and informative summaries. Depending on the approach used, text summarization can be categorized as either extractive or abstractive. While extractive methods are commonly used due to their simplicity, they often miss important information. On the other hand, Abstractive Summarization can generate more coherent and informative summaries by understanding the underlying meaning of the text. Abstractive techniques have gained attention in various languages, and recent advancements have been achieved through pre-training models such as BERT, BART, and T5. However, the challenge of summarizing long documents remains, and alternative models like Longformer have been introduced to address this limitation. In this context, this paper focuses on abstractive summarization in the Persian language. The authors introduce a new dataset of 300,000 full-text Persian papers obtained from the Ensani website and apply the ARMAN model, based on the Longformer architecture, to generate summaries. The experimental results demonstrate promising performance in Persian text summarization. The paper provides a comprehensive overview of related work, discusses the methodology, presents the experimental results, and concludes with future research directions.

World-action models (WAMs) jointly generate future video and robot actions through iterative diffusion, achieving strong performance on manipulation benchmarks but requiring tens of denoising steps, a cost that precludes real-time control. Step distillation has emerged as the natural remedy, but off-the-shelf methods break down in the joint video-action setting because video and action streams use different SNR-shifted noise schedules and reach training with substantially different marginal noise distributions, an asymmetry that single-modality distillation methods cannot accommodate. We introduce Flash-WAM, a modality-aware step-distillation framework inspired by consistency distillation that selects the consistency function for each modality to match its noise regime: a linear-gradient-scaling parametrization for the action stream's low-noise regime, paired with a variance-preserving parametrization for the video stream's high-noise regime, grounded in a structural analysis of the consistency-function family that characterizes the achievable gradient scaling under the consistency boundary condition. Instantiated on LingBot-VA, Flash-WAM compresses inference to a single step in each modality. On RoboTwin 2.0, this reduces per-chunk latency from 8.1 seconds to 348 ms on NVIDIA L40S, a 23{times} speedup that enables real-time inference. Flash-WAM preserves task success on simulation benchmarks (85.5% RoboTwin 2.0, 95.7% LIBERO) and substantially recovers real-world performance (60% average on a Unitree G1 humanoid robot), while naive consistency distillation drops to 24% at the same step budget.

As a step toward better document-level understanding, we explore classification of a sequence of sentences into their corresponding categories, a task that requires understanding sentences in context of the document. Recent successful models for this task have used hierarchical models to contextualize sentence representations, and Conditional Random Fields (CRFs) to incorporate dependencies between subsequent labels. In this work, we show that pretrained language models, BERT (Devlin et al., 2018) in particular, can be used for this task to capture contextual dependencies without the need for hierarchical encoding nor a CRF. Specifically, we construct a joint sentence representation that allows BERT Transformer layers to directly utilize contextual information from all words in all sentences. Our approach achieves state-of-the-art results on four datasets, including a new dataset of structured scientific abstracts.

With the rise of social media and online news sources, fake news has become a significant issue globally. However, the detection of fake news in low resource languages like Bengali has received limited attention in research. In this paper, we propose a methodology consisting of four distinct approaches to classify fake news articles in Bengali using summarization and augmentation techniques with five pre-trained language models. Our approach includes translating English news articles and using augmentation techniques to curb the deficit of fake news articles. Our research also focused on summarizing the news to tackle the token length limitation of BERT based models. Through extensive experimentation and rigorous evaluation, we show the effectiveness of summarization and augmentation in the case of Bengali fake news detection. We evaluated our models using three separate test datasets. The BanglaBERT Base model, when combined with augmentation techniques, achieved an impressive accuracy of 96% on the first test dataset. On the second test dataset, the BanglaBERT model, trained with summarized augmented news articles achieved 97% accuracy. Lastly, the mBERT Base model achieved an accuracy of 86% on the third test dataset which was reserved for generalization performance evaluation. The datasets and implementations are available at https://github.com/arman-sakif/Bengali-Fake-News-Detection

Neural abstractive summarization models have led to promising results in summarizing relatively short documents. We propose the first model for abstractive summarization of single, longer-form documents (e.g., research papers). Our approach consists of a new hierarchical encoder that models the discourse structure of a document, and an attentive discourse-aware decoder to generate the summary. Empirical results on two large-scale datasets of scientific papers show that our model significantly outperforms state-of-the-art models.

Recent text-to-image diffusion-based generative models have the stunning ability to generate highly detailed and photo-realistic images and achieve state-of-the-art low FID scores on challenging image generation benchmarks. However, one of the primary failure modes of these text-to-image generative models is in composing attributes, objects, and their associated relationships accurately into an image. In our paper, we investigate this compositionality-based failure mode and highlight that imperfect text conditioning with CLIP text-encoder is one of the primary reasons behind the inability of these models to generate high-fidelity compositional scenes. In particular, we show that (i) there exists an optimal text-embedding space that can generate highly coherent compositional scenes which shows that the output space of the CLIP text-encoder is sub-optimal, and (ii) we observe that the final token embeddings in CLIP are erroneous as they often include attention contributions from unrelated tokens in compositional prompts. Our main finding shows that the best compositional improvements can be achieved (without harming the model's FID scores) by fine-tuning {\it only} a simple linear projection on CLIP's representation space in Stable-Diffusion variants using a small set of compositional image-text pairs. This result demonstrates that the sub-optimality of the CLIP's output space is a major error source. We also show that re-weighting the erroneous attention contributions in CLIP can also lead to improved compositional performances, however these improvements are often less significant than those achieved by solely learning a linear projection head, highlighting erroneous attentions to be only a minor error source.

We present a new scientific document similarity model based on matching fine-grained aspects of texts. To train our model, we exploit a naturally-occurring source of supervision: sentences in the full-text of papers that cite multiple papers together (co-citations). Such co-citations not only reflect close paper relatedness, but also provide textual descriptions of how the co-cited papers are related. This novel form of textual supervision is used for learning to match aspects across papers. We develop multi-vector representations where vectors correspond to sentence-level aspects of documents, and present two methods for aspect matching: (1) A fast method that only matches single aspects, and (2) a method that makes sparse multiple matches with an Optimal Transport mechanism that computes an Earth Mover's Distance between aspects. Our approach improves performance on document similarity tasks in four datasets. Further, our fast single-match method achieves competitive results, paving the way for applying fine-grained similarity to large scientific corpora. Code, data, and models available at: https://github.com/allenai/aspire

Large Language Models (LLMs) deployed in real-world settings increasingly face the need to unlearn sensitive, outdated, or proprietary information. Existing unlearning methods typically formulate forgetting and retention as a regularized trade-off, combining both objectives into a single scalarized loss. This often leads to unstable optimization and degraded performance on retained data, especially under aggressive forgetting. We propose a new formulation of LLM unlearning as a constrained optimization problem: forgetting is enforced via a novel logit-margin flattening loss that explicitly drives the output distribution toward uniformity on a designated forget set, while retention is preserved through a hard constraint on a separate retain set. Compared to entropy-based objectives, our loss is softmax-free, numerically stable, and maintains non-vanishing gradients, enabling more efficient and robust optimization. We solve the constrained problem using a scalable primal-dual algorithm that exposes the trade-off between forgetting and retention through the dynamics of the dual variable, all without any extra computational overhead. Evaluations on the TOFU and MUSE benchmarks across diverse LLM architectures demonstrate that our approach consistently matches or exceeds state-of-the-art baselines, effectively removing targeted information while preserving downstream utility.

We introduce a new pretraining approach geared for multi-document language modeling, incorporating two key ideas into the masked language modeling self-supervised objective. First, instead of considering documents in isolation, we pretrain over sets of multiple related documents, encouraging the model to learn cross-document relationships. Second, we improve over recent long-range transformers by introducing dynamic global attention that has access to the entire input to predict masked tokens. We release CDLM (Cross-Document Language Model), a new general language model for multi-document setting that can be easily applied to downstream tasks. Our extensive analysis shows that both ideas are essential for the success of CDLM, and work in synergy to set new state-of-the-art results for several multi-text tasks. Code and models are available at https://github.com/aviclu/CDLM.

A fundamental skill among human developers is the ability to understand and reason about program execution. As an example, a programmer can mentally simulate code execution in natural language to debug and repair code (aka. rubber duck debugging). However, large language models (LLMs) of code are typically trained on the surface textual form of programs, thus may lack a semantic understanding of how programs execute at run-time. To address this issue, we propose NExT, a method to teach LLMs to inspect the execution traces of programs (variable states of executed lines) and reason about their run-time behavior through chain-of-thought (CoT) rationales. Specifically, NExT uses self-training to bootstrap a synthetic training set of execution-aware rationales that lead to correct task solutions (e.g., fixed programs) without laborious manual annotation. Experiments on program repair tasks based on MBPP and HumanEval demonstrate that NExT improves the fix rate of a PaLM 2 model, by 26.1% and 14.3% absolute, respectively, with significantly improved rationale quality as verified by automated metrics and human raters. Our model can also generalize to scenarios where program traces are absent at test-time.

Vision-Language-Action (VLA) models exhibit remarkable action generation for embodied intelligence, but their heavy compute make deployment on edge platforms impractical. Aggressive, sub-4-bit weight quantization is the natural solution, yet existing post-training quantization (PTQ) methods suffer severe performance degradation in this regime. To address this, we introduce ActQuant, an action-guided mixed-precision PTQ framework that operates in two stages: (1) an inter-tensor bit allocator that assigns each weight matrix a single bit-width based on how much it contributes to predicting the agent's actions; (2) an intra-tensor scale optimizer tunes per-block quantization scales using action-aware curvature, so that dynamic range is concentrated on the weights most influential for control. To deliver the on-device benefits of our aggressive quantization, we further introduce OmniModel.cpp, an agentic conversion pipeline that ports architectures into a native C/C++ runtime with efficient low-bit kernels. We evaluate ActQuant both in simulation and on a real-world 6-DoF UR3 arm, with all models deployed through OmniModel.cpp. On the LIBERO benchmark, ActQuant is the only method that operates at or below 3 bits-per-weight, retaining 95.0% on OpenVLA-OFT and 94.8% on π_{0.5}. Pushed further, ActQuant reaches 2.5 bpw at 90.1% on OpenVLA-OFT, compressing the backbone from 14.3 GB to 2.7 GB (5.3times). On the physical UR3 arm, π_{0.5} quantized with ActQuant retains the baseline's success rate while reducing the memory footprint by 2.5times.

This comprehensive report distinguishes prior works by the cognitive functions they innovate. Many works claim an almost "human-like" cognitive capability in their world models. To evaluate these claims requires a proper grounding in first principles in Cognitive Architecture Theory (CAT). We present a conceptual unified framework for world models that fully incorporates all the cognitive functions associated with CAT (i.e. memory, perception, language, reasoning, imagining, motivation, and meta-cognition) and identify gaps in the research as a guide for future states of the art. In particular, we find that motivation (especially intrinsic motivation) and meta-cognition remain drastically under-researched, and we propose concrete directions informed by active inference and global workspace theory to address them. We further introduce Epistemic World Models, a new category encompassing agent frameworks for scientific discovery that operate over structured knowledge. Our taxonomy, applied across video, embodied, and epistemic world models, suggests research directions where prior taxonomies have not.

Large language model (LLM)-based embedding models, benefiting from large scale pre-training and post-training, have begun to surpass BERT and T5-based models on general-purpose text embedding tasks such as document retrieval. However, a fundamental limitation of LLM embeddings lies in the unidirectional attention used during autoregressive pre-training, which misaligns with the bidirectional nature of text embedding tasks. To this end, We propose adopting diffusion language models for text embeddings, motivated by their inherent bidirectional architecture and recent success in matching or surpassing LLMs especially on reasoning tasks. We present the first systematic study of the diffusion language embedding model, which outperforms the LLM-based embedding model by 20% on long-document retrieval, 8% on reasoning-intensive retrieval, 2% on instruction-following retrieval, and achieve competitive performance on traditional text embedding benchmarks. Our analysis verifies that bidirectional attention is crucial for encoding global context in long and complex text.

We introduce ResearchGym, a benchmark and execution environment for evaluating AI agents on end-to-end research. To instantiate this, we repurpose five oral and spotlight papers from ICML, ICLR, and ACL. From each paper's repository, we preserve the datasets, evaluation harness, and baseline implementations but withhold the paper's proposed method. This results in five containerized task environments comprising 39 sub-tasks in total. Within each environment, agents must propose novel hypotheses, run experiments, and attempt to surpass strong human baselines on the paper's metrics. In a controlled evaluation of an agent powered by GPT-5, we observe a sharp capability--reliability gap. The agent improves over the provided baselines from the repository in just 1 of 15 evaluations (6.7%) by 11.5%, and completes only 26.5% of sub-tasks on average. We identify recurring long-horizon failure modes, including impatience, poor time and resource management, overconfidence in weak hypotheses, difficulty coordinating parallel experiments, and hard limits from context length. Yet in a single run, the agent surpasses the solution of an ICML 2025 Spotlight task, indicating that frontier agents can occasionally reach state-of-the-art performance, but do so unreliably. We additionally evaluate proprietary agent scaffolds including Claude Code (Opus-4.5) and Codex (GPT-5.2) which display a similar gap. ResearchGym provides infrastructure for systematic evaluation and analysis of autonomous agents on closed-loop research.

We introduce TESS 2, a general instruction-following diffusion language model that outperforms contemporary instruction-tuned diffusion models, as well as matches and sometimes exceeds strong autoregressive (AR) models. We train TESS 2 by first adapting a strong AR model via continued pretraining with the usual cross-entropy as diffusion loss, and then performing further instruction tuning. We find that adaptation training as well as the choice of the base model is crucial for training good instruction-following diffusion models. We further propose reward guidance, a novel and modular inference-time guidance procedure to align model outputs without needing to train the underlying model. Finally, we show that TESS 2 further improves with increased inference-time compute, highlighting the utility of diffusion LMs in having fine-grained controllability over the amount of compute used at inference time. Code and models are available at https://github.com/hamishivi/tess-2.

Decisions about managing patients on the heart transplant waitlist are currently made by committees of doctors who consider multiple factors, but the process remains largely ad-hoc. With the growing volume of longitudinal patient, donor, and organ data collected by the United Network for Organ Sharing (UNOS) since 2018, there is increasing interest in analytical approaches to support clinical decision-making at the time of organ availability. In this study, we benchmark machine learning models that leverage longitudinal waitlist history data for time-dependent, time-to-event modeling of waitlist mortality. We train on 23,807 patient records with 77 variables and evaluate both survival prediction and discrimination at a 1-year horizon. Our best model achieves a C-Index of 0.94 and AUROC of 0.89, significantly outperforming previous models. Key predictors align with known risk factors while also revealing novel associations. Our findings can support urgency assessment and policy refinement in heart transplant decision making.

Obtaining large-scale annotated data for NLP tasks in the scientific domain is challenging and expensive. We release SciBERT, a pretrained language model based on BERT (Devlin et al., 2018) to address the lack of high-quality, large-scale labeled scientific data. SciBERT leverages unsupervised pretraining on a large multi-domain corpus of scientific publications to improve performance on downstream scientific NLP tasks. We evaluate on a suite of tasks including sequence tagging, sentence classification and dependency parsing, with datasets from a variety of scientific domains. We demonstrate statistically significant improvements over BERT and achieve new state-of-the-art results on several of these tasks. The code and pretrained models are available at https://github.com/allenai/scibert/.

Language models (LMs) have become ubiquitous in both NLP research and in commercial product offerings. As their commercial importance has surged, the most powerful models have become closed off, gated behind proprietary interfaces, with important details of their training data, architectures, and development undisclosed. Given the importance of these details in scientifically studying these models, including their biases and potential risks, we believe it is essential for the research community to have access to powerful, truly open LMs. To this end, this technical report details the first release of OLMo, a state-of-the-art, truly Open Language Model and its framework to build and study the science of language modeling. Unlike most prior efforts that have only released model weights and inference code, we release OLMo and the whole framework, including training data and training and evaluation code. We hope this release will empower and strengthen the open research community and inspire a new wave of innovation.

Large language models have made significant progress in complex but easy-to-verify problems, yet they still struggle with discovering the unknown. In this paper, we present AlphaResearch, an autonomous research agent designed to discover new algorithms on open-ended problems. To synergize the feasibility and innovation of the discovery process, we construct a novel dual research environment by combining the execution-based verify and simulated real-world peer review environment. AlphaResearch discovers new algorithm by iteratively running the following steps: (1) propose new ideas (2) verify the ideas in the dual research environment (3) optimize the research proposals for better performance. To promote a transparent evaluation process, we construct AlphaResearchComp, a new evaluation benchmark that includes an eight open-ended algorithmic problems competition, with each problem carefully curated and verified through executable pipelines, objective metrics, and reproducibility checks. AlphaResearch gets a 2/8 win rate in head-to-head comparison with human researchers, demonstrate the possibility of accelerating algorithm discovery with LLMs. Notably, the algorithm discovered by AlphaResearch on the ``packing circles'' problem achieves the best-of-known performance, surpassing the results of human researchers and strong baselines from recent work (e.g., AlphaEvolve). Additionally, we conduct a comprehensive analysis of the remaining challenges of the 6/8 failure cases, providing valuable insights for future research.

Generative world models are increasingly used for video generation, where learned simulators are expected to capture the physical rules that govern real-world dynamics. However, evaluating whether generated videos actually follow these rules remains challenging. Existing physics-focused video benchmarks have made important progress, but they still face three key challenges, including the coarse evaluation frameworks that hide law-specific failures, response biases and fatigue that undermine the validity of annotation judgments, and automated evaluators that are insufficiently physics-aware or difficult to audit. To address those challenges, we introduce PhyGround, a criteria-grounded benchmark for evaluating physical reasoning in video generation. The benchmark contains 250 curated prompts, each augmented with an expected physical outcome, and a taxonomy of 13 physical laws across solid-body mechanics, fluid dynamics, and optics. Each law is operationalized through observable sub-questions to enable per-law diagnostics. We evaluate eight modern video generation models through a large-scale, quality-controlled human study, grounded on social science lab experiment design. A total of 459 annotators provided 5,796 complete annotations and over 37.4K fine-grained labels; after quality control, the retained annotations exhibited high split-half model-ranking correlations (Spearman's rho > 0.90). To support reproducible automated evaluation, we release PhyJudge-9B, an open physics-specialized VLM judge. PhyJudge-9B achieves substantially lower aggregate relative bias than Gemini-3.1-Pro (3.3% vs. 16.6%). We release prompts, human annotations, model checkpoints, and evaluation code on the project page https://phyground.github.io/.

Large Language Models (LLMs), despite their remarkable progress across various general domains, encounter significant barriers in medicine and healthcare. This field faces unique challenges such as domain-specific terminologies and the reasoning over specialized knowledge. To address these obstinate issues, we propose a novel Multi-disciplinary Collaboration (MC) framework for the medical domain that leverages role-playing LLM-based agents who participate in a collaborative multi-round discussion, thereby enhancing LLM proficiency and reasoning capabilities. This training-free and interpretable framework encompasses five critical steps: gathering domain experts, proposing individual analyses, summarising these analyses into a report, iterating over discussions until a consensus is reached, and ultimately making a decision. Our work particularly focuses on the zero-shot scenario, our results on nine data sets (MedQA, MedMCQA, PubMedQA, and six subtasks from MMLU) establish that our proposed MC framework excels at mining and harnessing the medical expertise in LLMs, as well as extending its reasoning abilities. Based on these outcomes, we further conduct a human evaluation to pinpoint and categorize common errors within our method, as well as ablation studies aimed at understanding the impact of various factors on overall performance. Our code can be found at https://github.com/gersteinlab/MedAgents.

Large language models (LLMs) have shown remarkable ability on controllable text generation. However, the potential of LLMs in generating text from structured tables remains largely under-explored. In this paper, we study the capabilities of LLMs for table-to-text generation tasks, particularly aiming to investigate their performance in generating natural language statements that can be logically entailed by a provided table. First, we investigate how LLMs compare to state-of-the-art table-to-text fine-tuned models, and demonstrate that LLMs can generate statements with higher faithfulness compared with previous state-of-the-art fine-tuned models. Given this finding, we next explore whether LLMs can serve as faithfulness-level automated evaluation metrics. Through human evaluation, we show that evaluation metrics adopted from LLMs correlates better with human judgments compared with existing faithfulness-level metrics. Finally, we demonstrate that LLMs using chain-of-thought prompting can generate high-fidelity natural language feedback for other table-to-text models' generations, provide insights for future work regarding the distillation of text generation capabilities from LLMs to smaller models.

While large language models have achieved remarkable performance on various code generation benchmarks, there have been growing concerns regarding potential contamination of these benchmarks as they may be leaked into pretraining and finetuning data. While recent work has investigated contamination in natural language generation and understanding tasks, there has been less extensive research into how data contamination impacts the evaluation of code generation, which is critical for understanding the robustness and reliability of LLMs in programming contexts. In this work, we perform a comprehensive study of data contamination of popular code generation benchmarks, and precisely quantify their overlap with pretraining corpus through both surface-level and semantic-level matching. In our experiments, we show that there are substantial overlap between popular code generation benchmarks and open training corpus, and models perform significantly better on the subset of the benchmarks where similar solutions are seen during training. We also conduct extensive analysis on the factors that affects model memorization and generalization, such as model size, problem difficulty, and question length. We release all resulting files from our matching pipeline for future research.

We introduce PHYSICS, a comprehensive benchmark for university-level physics problem solving. It contains 1297 expert-annotated problems covering six core areas: classical mechanics, quantum mechanics, thermodynamics and statistical mechanics, electromagnetism, atomic physics, and optics. Each problem requires advanced physics knowledge and mathematical reasoning. We develop a robust automated evaluation system for precise and reliable validation. Our evaluation of leading foundation models reveals substantial limitations. Even the most advanced model, o3-mini, achieves only 59.9% accuracy, highlighting significant challenges in solving high-level scientific problems. Through comprehensive error analysis, exploration of diverse prompting strategies, and Retrieval-Augmented Generation (RAG)-based knowledge augmentation, we identify key areas for improvement, laying the foundation for future advancements.

This paper introduces MISS-QA, the first benchmark specifically designed to evaluate the ability of models to interpret schematic diagrams within scientific literature. MISS-QA comprises 1,500 expert-annotated examples over 465 scientific papers. In this benchmark, models are tasked with interpreting schematic diagrams that illustrate research overviews and answering corresponding information-seeking questions based on the broader context of the paper. We assess the performance of 18 frontier multimodal foundation models, including o4-mini, Gemini-2.5-Flash, and Qwen2.5-VL. We reveal a significant performance gap between these models and human experts on MISS-QA. Our analysis of model performance on unanswerable questions and our detailed error analysis further highlight the strengths and limitations of current models, offering key insights to enhance models in comprehending multimodal scientific literature.

Despite the power of Large Language Models (LLMs) like GPT-4, they still struggle with tasks that require generating complex, structured outputs. In this study, we assess the capability of Current LLMs in generating complex structured data and propose a structure-aware fine-tuning approach as a solution to improve this ability. To perform a comprehensive evaluation, we propose Struc-Bench, include five representative LLMs (i.e., GPT-NeoX 20B, GPT-3.5, GPT-4, and Vicuna) and evaluate them on our carefully constructed datasets spanning raw text, HTML, and LaTeX tables. Based on our analysis of current model performance, we identify specific common formatting errors and areas of potential improvement. To address complex formatting requirements, we utilize FormatCoT (Chain-of-Thought) to generate format instructions from target outputs. Our experiments show that our structure-aware fine-tuning method, when applied to LLaMA-7B, significantly improves adherence to natural language constraints, outperforming other evaluated LLMs. Based on these results, we present an ability map of model capabilities from six dimensions (i.e., coverage, formatting, reasoning, comprehension, pragmatics, and hallucination). This map highlights the weaknesses of LLMs in handling complex structured outputs and suggests promising directions for future work. Our code and models can be found at https://github.com/gersteinlab/Struc-Bench.

The integration of multi-document pre-training objectives into language models has resulted in remarkable improvements in multi-document downstream tasks. In this work, we propose extending this idea by pre-training a generic multi-document model from a novel cross-document question answering pre-training objective. To that end, given a set (or cluster) of topically-related documents, we systematically generate semantically-oriented questions from a salient sentence in one document and challenge the model, during pre-training, to answer these questions while "peeking" into other topically-related documents. In a similar manner, the model is also challenged to recover the sentence from which the question was generated, again while leveraging cross-document information. This novel multi-document QA formulation directs the model to better recover cross-text informational relations, and introduces a natural augmentation that artificially increases the pre-training data. Further, unlike prior multi-document models that focus on either classification or summarization tasks, our pre-training objective formulation enables the model to perform tasks that involve both short text generation (e.g., QA) and long text generation (e.g., summarization). Following this scheme, we pre-train our model -- termed QAmden -- and evaluate its performance across several multi-document tasks, including multi-document QA, summarization, and query-focused summarization, yielding improvements of up to 7%, and significantly outperforms zero-shot GPT-3.5 and GPT-4.

World simulators can provide safe and scalable environments for training Physical AI systems before real-world deployment. Large video generation models are emerging as a promising basis for such simulators because they can generate diverse and realistic visual futures. However, using them as world simulators requires physically faithful video continuations, namely, generated videos that preserve the physical state implied by the conditioning input, and evolve in ways consistent with basic physical principles. We propose PhyWorld, a video generation world model designed to produce temporally coherent and physically faithful scene continuations through two-stage post-training. In the first stage, we improve video-to-video continuation with flow matching fine-tuning, encouraging stable visual attributes and coherent motion dynamics across frames. In the second stage, we align generated dynamics with physical principles using Direct Preference Optimization (DPO) over physics preference pairs, guiding the model toward outputs with higher physical plausibility. To evaluate PhyWorld, we use both standard video-quality benchmarks and a dedicated physical-faithfulness benchmark with per-law scoring. Experiments show that PhyWorld improves video consistency, achieving an average score of 0.769 on VBench compared with 0.756 or below for state-of-the-art baselines. PhyWorld also improves physical plausibility, reaching an average score of 3.09 on our physical-faithfulness benchmark compared with 2.99 for the strongest baseline. These results suggest that post-training large video generation models with continuation and physics-preference signals can make them more effective world simulators for Physical AI.

Virtual cell modeling represents an emerging frontier at the intersection of artificial intelligence and biology, aiming to predict quantities such as responses to diverse perturbations quantitatively. However, autonomously building computational models for virtual cells is challenging due to the complexity of biological systems, the heterogeneity of data modalities, and the need for domain-specific expertise across multiple disciplines. Here, we introduce CellForge, an agentic system that leverages a multi-agent framework that transforms presented biological datasets and research objectives directly into optimized computational models for virtual cells. More specifically, given only raw single-cell multi-omics data and task descriptions as input, CellForge outputs both an optimized model architecture and executable code for training virtual cell models and inference. The framework integrates three core modules: Task Analysis for presented dataset characterization and relevant literature retrieval, Method Design, where specialized agents collaboratively develop optimized modeling strategies, and Experiment Execution for automated generation of code. The agents in the Design module are separated into experts with differing perspectives and a central moderator, and have to collaboratively exchange solutions until they achieve a reasonable consensus. We demonstrate CellForge's capabilities in single-cell perturbation prediction, using six diverse datasets that encompass gene knockouts, drug treatments, and cytokine stimulations across multiple modalities. CellForge consistently outperforms task-specific state-of-the-art methods. Overall, CellForge demonstrates how iterative interaction between LLM agents with differing perspectives provides better solutions than directly addressing a modeling challenge. Our code is publicly available at https://github.com/gersteinlab/CellForge.

We introduce AbGen, the first benchmark designed to evaluate the capabilities of LLMs in designing ablation studies for scientific research. AbGen consists of 1,500 expert-annotated examples derived from 807 NLP papers. In this benchmark, LLMs are tasked with generating detailed ablation study designs for a specified module or process based on the given research context. Our evaluation of leading LLMs, such as DeepSeek-R1-0528 and o4-mini, highlights a significant performance gap between these models and human experts in terms of the importance, faithfulness, and soundness of the ablation study designs. Moreover, we demonstrate that current automated evaluation methods are not reliable for our task, as they show a significant discrepancy when compared to human assessment. To better investigate this, we develop AbGen-Eval, a meta-evaluation benchmark designed to assess the reliability of commonly used automated evaluation systems in measuring LLM performance on our task. We investigate various LLM-as-Judge systems on AbGen-Eval, providing insights for future research on developing more effective and reliable LLM-based evaluation systems for complex scientific tasks.

Large Language Models (LLMs) have shown impressive performance on existing medical question-answering benchmarks. This high performance makes it increasingly difficult to meaningfully evaluate and differentiate advanced methods. We present MedAgentsBench, a benchmark that focuses on challenging medical questions requiring multi-step clinical reasoning, diagnosis formulation, and treatment planning-scenarios where current models still struggle despite their strong performance on standard tests. Drawing from seven established medical datasets, our benchmark addresses three key limitations in existing evaluations: (1) the prevalence of straightforward questions where even base models achieve high performance, (2) inconsistent sampling and evaluation protocols across studies, and (3) lack of systematic analysis of the interplay between performance, cost, and inference time. Through experiments with various base models and reasoning methods, we demonstrate that the latest thinking models, DeepSeek R1 and OpenAI o3, exhibit exceptional performance in complex medical reasoning tasks. Additionally, advanced search-based agent methods offer promising performance-to-cost ratios compared to traditional approaches. Our analysis reveals substantial performance gaps between model families on complex questions and identifies optimal model selections for different computational constraints. Our benchmark and evaluation framework are publicly available at https://github.com/gersteinlab/medagents-benchmark.

Existing benchmarks for evaluating foundation models mainly focus on single-document, text-only tasks. However, they often fail to fully capture the complexity of research workflows, which typically involve interpreting non-textual data and gathering information across multiple documents. To address this gap, we introduce M3SciQA, a multi-modal, multi-document scientific question answering benchmark designed for a more comprehensive evaluation of foundation models. M3SciQA consists of 1,452 expert-annotated questions spanning 70 natural language processing paper clusters, where each cluster represents a primary paper along with all its cited documents, mirroring the workflow of comprehending a single paper by requiring multi-modal and multi-document data. With M3SciQA, we conduct a comprehensive evaluation of 18 foundation models. Our results indicate that current foundation models still significantly underperform compared to human experts in multi-modal information retrieval and in reasoning across multiple scientific documents. Additionally, we explore the implications of these findings for the future advancement of applying foundation models in multi-modal scientific literature analysis.

We introduce self-invoking code generation, a new task designed to evaluate the progressive reasoning and problem-solving capabilities of LLMs. In this task, models are presented with a base problem and a related, more complex problem. They must solve the base problem and then utilize its solution to address the more complex one. This work features three key contributions. First, we propose a general recipe for generating more challenging versions of existing benchmarks, resulting in three new benchmarks: HumanEval Pro, MBPP Pro, and BigCodeBench-Lite Pro, specifically designed to assess LLMs on self-invoking code generation. Second, from the analysis of experimental results over twenty LLMs on our benchmarks, we have two important observations: (i) Most LLMs excel in traditional code generation benchmarks like HumanEval and MBPP, but their performance declines on self-invoking tasks. For example, o1-mini achieves 96.2% pass@1 on HumanEval but only 76.2% on HumanEval Pro. (ii) On self-invoking code generation task, the instruction-tuned models demonstrate only marginal improvements compared to the base models. Third, we disclose the types of failure modes that exist in our evaluation results. All these results underscore the need for further advancements in self-invoking code generation tasks and provide a new direction for future research on enhancing LLMs' code reasoning capabilities.

We introduce SciVer, the first benchmark specifically designed to evaluate the ability of foundation models to verify claims within a multimodal scientific context. SciVer consists of 3,000 expert-annotated examples over 1,113 scientific papers, covering four subsets, each representing a common reasoning type in multimodal scientific claim verification. To enable fine-grained evaluation, each example includes expert-annotated supporting evidence. We assess the performance of 21 state-of-the-art multimodal foundation models, including o4-mini, Gemini-2.5-Flash, Llama-3.2-Vision, and Qwen2.5-VL. Our experiment reveals a substantial performance gap between these models and human experts on SciVer. Through an in-depth analysis of retrieval-augmented generation (RAG), and human-conducted error evaluations, we identify critical limitations in current open-source models, offering key insights to advance models' comprehension and reasoning in multimodal scientific literature tasks.

Modern Large Language Models (LLMs) are capable of following long and complex instructions that enable a diverse amount of user tasks. However, despite Information Retrieval (IR) models using LLMs as the backbone of their architectures, nearly all of them still only take queries as input, with no instructions. For the handful of recent models that do take instructions, it's unclear how they use them. We introduce our dataset FollowIR, which contains a rigorous instruction evaluation benchmark as well as a training set for helping IR models learn to better follow real-world instructions. FollowIR builds off the long history of the TREC conferences: as TREC provides human annotators with instructions (also known as narratives) to determine document relevance, so should IR models be able to understand and decide relevance based on these detailed instructions. Our evaluation benchmark starts with three deeply judged TREC collections and alters the annotator instructions, re-annotating relevant documents. Through this process, we can measure how well IR models follow instructions, through a new pairwise evaluation framework. Our results indicate that existing retrieval models fail to correctly use instructions, using them for basic keywords and struggling to understand long-form information. However, we show that it is possible for IR models to learn to follow complex instructions: our new FollowIR-7B model has significant improvements (over 13%) after fine-tuning on our training set.

Large language models have shown promising performance in code generation benchmarks. However, a considerable divide exists between these benchmark achievements and their practical applicability, primarily attributed to real-world programming's reliance on pre-existing libraries. Instead of evaluating LLMs to code from scratch, this work aims to propose a new evaluation setup where LLMs use open-source libraries to finish machine learning tasks. Therefore, we propose ML-Bench, an expansive benchmark developed to assess the effectiveness of LLMs in leveraging existing functions in open-source libraries. Consisting of 10044 samples spanning 130 tasks over 14 notable machine learning GitHub repositories. In this setting, given a specific machine learning task instruction and the accompanying README in a codebase, an LLM is tasked to generate code to accomplish the task. This necessitates the comprehension of long and language-code interleaved documents, as well as the understanding of complex cross-file code structures, introducing new challenges. Notably, while GPT-4 exhibits remarkable improvement over other LLMs, it manages to accomplish only 39.73\% of the tasks, leaving a huge space for improvement. We address these challenges by proposing ML-Agent, designed to effectively navigate the codebase, locate documentation, retrieve code, and generate executable code. Empirical results demonstrate that ML-Agent, built upon GPT-4, results in further improvements. Code, data, and models are available at https://ml-bench.github.io/.

This work investigates the reasoning and planning capabilities of foundation models and their scalability in complex, dynamic environments. We introduce PuzzlePlex, a benchmark designed to assess these capabilities through a diverse set of puzzles. PuzzlePlex consists of 15 types of puzzles, including deterministic and stochastic games of varying difficulty, as well as single-player and two-player scenarios. The PuzzlePlex framework provides a comprehensive environment for each game, and supports extensibility to generate more challenging instances as foundation models evolve. Additionally, we implement customized game-playing strategies for comparison. Building on this benchmark, we develop fine-grained metrics to measure performance and conduct an in-depth analysis of frontier foundation models across two settings: instruction-based and code-based. Furthermore, we systematically investigate their scaling limits. Our findings show that reasoning models outperform others in instruction-based settings, while code-based execution presents greater challenges but offers a scalable and efficient alternative. PuzzlePlex enables targeted evaluation and guides future improvements in reasoning, planning, and generalization for foundation models.

The rise of foundation models has transformed machine learning research, prompting efforts to uncover their inner workings and develop more efficient and reliable applications for better control. While significant progress has been made in interpreting Large Language Models (LLMs), multimodal foundation models (MMFMs) - such as contrastive vision-language models, generative vision-language models, and text-to-image models - pose unique interpretability challenges beyond unimodal frameworks. Despite initial studies, a substantial gap remains between the interpretability of LLMs and MMFMs. This survey explores two key aspects: (1) the adaptation of LLM interpretability methods to multimodal models and (2) understanding the mechanistic differences between unimodal language models and crossmodal systems. By systematically reviewing current MMFM analysis techniques, we propose a structured taxonomy of interpretability methods, compare insights across unimodal and multimodal architectures, and highlight critical research gaps.

Existing benchmarks often highlight the remarkable performance achieved by state-of-the-art Multimodal Foundation Models (MFMs) in leveraging temporal context for video understanding. However, how well do the models truly perform visual temporal reasoning? Our study of existing benchmarks shows that this capability of MFMs is likely overestimated as many questions can be solved by using a single, few, or out-of-order frames. To systematically examine current visual temporal reasoning tasks, we propose three principles with corresponding metrics: (1) Multi-Frame Gain, (2) Frame Order Sensitivity, and (3) Frame Information Disparity. Following these principles, we introduce TOMATO, Temporal Reasoning Multimodal Evaluation, a novel benchmark crafted to rigorously assess MFMs' temporal reasoning capabilities in video understanding. TOMATO comprises 1,484 carefully curated, human-annotated questions spanning six tasks (i.e., action count, direction, rotation, shape & trend, velocity & frequency, and visual cues), applied to 1,417 videos, including 805 self-recorded and -generated videos, that encompass human-centric, real-world, and simulated scenarios. Our comprehensive evaluation reveals a human-model performance gap of 57.3% with the best-performing model. Moreover, our in-depth analysis uncovers more fundamental limitations beyond this gap in current MFMs. While they can accurately recognize events in isolated frames, they fail to interpret these frames as a continuous sequence. We believe TOMATO will serve as a crucial testbed for evaluating the next-generation MFMs and as a call to the community to develop AI systems capable of comprehending human world dynamics through the video modality.

Information retrieval methods often rely on a single embedding model trained on large, general-domain datasets like MSMARCO. While this approach can produce a retriever with reasonable overall performance, models trained on domain-specific data often yield better results within their respective domains. While prior work in information retrieval has tackled this through multi-task training, the topic of combining multiple domain-specific expert retrievers remains unexplored, despite its popularity in language model generation. In this work, we introduce RouterRetriever, a retrieval model that leverages multiple domain-specific experts along with a routing mechanism to select the most appropriate expert for each query. It is lightweight and allows easy addition or removal of experts without additional training. Evaluation on the BEIR benchmark demonstrates that RouterRetriever outperforms both MSMARCO-trained (+2.1 absolute nDCG@10) and multi-task trained (+3.2) models. This is achieved by employing our routing mechanism, which surpasses other routing techniques (+1.8 on average) commonly used in language modeling. Furthermore, the benefit generalizes well to other datasets, even in the absence of a specific expert on the dataset. To our knowledge, RouterRetriever is the first work to demonstrate the advantages of using multiple domain-specific expert embedding models with effective routing over a single, general-purpose embedding model in retrieval tasks.

Recently, large language models (LLMs), especially those that are pretrained on code, have demonstrated strong capabilities in generating programs from natural language inputs in a few-shot or even zero-shot manner. Despite promising results, there is a notable lack of a comprehensive evaluation of these models language-to-code generation capabilities. Existing studies often focus on specific tasks, model architectures, or learning paradigms, leading to a fragmented understanding of the overall landscape. In this work, we present L2CEval, a systematic evaluation of the language-to-code generation capabilities of LLMs on 7 tasks across the domain spectrum of semantic parsing, math reasoning and Python programming, analyzing the factors that potentially affect their performance, such as model size, pretraining data, instruction tuning, and different prompting methods. In addition to assessing model performance, we measure confidence calibration for the models and conduct human evaluations of the output programs. This enables us to identify and analyze the typical failure modes across various tasks and models. L2CEval offers a comprehensive understanding of the capabilities and limitations of LLMs in language-to-code generation. We also release the evaluation framework and all model outputs, hoping to lay the groundwork for further future research in this domain.

Despite progress in language model (LM) capabilities, evaluations have thus far focused on models' performance on tasks that humans have previously solved, including in programming (Jimenez et al., 2024) and mathematics (Glazer et al., 2024). We therefore propose testing models' ability to design and implement algorithms in an open-ended benchmark: We task LMs with writing code that efficiently solves computationally challenging problems in computer science, physics, and mathematics. Our AlgoTune benchmark consists of 154 coding tasks collected from domain experts and a framework for validating and timing LM-synthesized solution code, which is compared to reference implementations from popular open-source packages. In addition, we develop a baseline LM agent, AlgoTuner, and evaluate its performance across a suite of frontier models. AlgoTuner uses a simple, budgeted loop that edits code, compiles and runs it, profiles performance, verifies correctness on tests, and selects the fastest valid version. AlgoTuner achieves an average 1.72x speedup against our reference solvers, which use libraries such as SciPy, sk-learn and CVXPY. However, we find that current models fail to discover algorithmic innovations, instead preferring surface-level optimizations. We hope that AlgoTune catalyzes the development of LM agents exhibiting creative problem solving beyond state-of-the-art human performance.

Recent studies have found that summaries generated by large language models (LLMs) are favored by human annotators over the original reference summaries in commonly used summarization datasets. Therefore, we investigate a new learning paradigm of text summarization models that considers the LLMs as the reference or the gold-standard oracle on commonly used summarization datasets such as the CNN/DailyMail dataset. To examine the standard practices that are aligned with the new learning setting, we propose a novel training method that is based on contrastive learning with LLMs as a summarization quality evaluator. For this reward-based training method, we investigate two different methods of utilizing LLMs for summary quality evaluation, namely GPTScore and GPTRank. Our experiments on the CNN/DailyMail dataset demonstrate that smaller summarization models trained by our proposed method can achieve performance equal to or surpass that of the reference LLMs, as evaluated by the LLMs themselves. This underscores the efficacy of our proposed paradigm in enhancing model performance over the standard maximum likelihood estimation (MLE) training method, and its efficiency since it only requires a small budget to access the LLMs. We release the training scripts, model outputs, and LLM-based evaluation results to facilitate future studies.

Recent observations have underscored a disparity between the inflated benchmark scores and the actual performance of LLMs, raising concerns about potential contamination of evaluation benchmarks. This issue is especially critical for closed-source models and certain open-source models where training data transparency is lacking. In this paper we study data contamination by proposing two methods tailored for both open-source and proprietary LLMs. We first introduce a retrieval-based system to explore potential overlaps between evaluation benchmarks and pretraining corpora. We further present a novel investigation protocol named Testset Slot Guessing (TS-Guessing), applicable to both open and proprietary models. This approach entails masking a wrong answer in a multiple-choice question and prompting the model to fill in the gap. Additionally, it involves obscuring an unlikely word in an evaluation example and asking the model to produce it. We find that certain commercial LLMs could surprisingly guess the missing option in various test sets. Specifically, in the TruthfulQA benchmark, we find that LLMs exhibit notable performance improvement when provided with additional metadata in the benchmark. Further, in the MMLU benchmark, ChatGPT and GPT-4 demonstrated an exact match rate of 52\% and 57\%, respectively, in guessing the missing options in benchmark test data. We hope these results underscore the need for more robust evaluation methodologies and benchmarks in the field.

While large language models (LLMs) already achieve strong performance on standard generic summarization benchmarks, their performance on more complex summarization task settings is less studied. Therefore, we benchmark LLMs on instruction controllable text summarization, where the model input consists of both a source article and a natural language requirement for the desired summary characteristics. To this end, we curate an evaluation-only dataset for this task setting and conduct human evaluation on 5 LLM-based summarization systems. We then benchmark LLM-based automatic evaluation for this task with 4 different evaluation protocols and 11 LLMs, resulting in 40 evaluation methods in total. Our study reveals that instruction controllable text summarization remains a challenging task for LLMs, since (1) all LLMs evaluated still make factual and other types of errors in their summaries; (2) all LLM-based evaluation methods cannot achieve a strong alignment with human annotators when judging the quality of candidate summaries; (3) different LLMs show large performance gaps in summary generation and evaluation. We make our collected benchmark, InstruSum, publicly available to facilitate future research in this direction.

Vision evaluations are typically done through multi-step processes. In most contemporary fields, experts analyze images using structured, evidence-based adaptive questioning. In plant pathology, botanists inspect leaf images, identify visual cues, infer diagnostic intent, and probe further with targeted questions that adapt to species, symptoms, and severity. This structured probing is crucial for accurate disease diagnosis and treatment formulation. Yet current vision-language models are evaluated on single-turn question answering. To address this gap, we introduce PlantInquiryVQA, a benchmark for studying multi-step, intent-driven visual reasoning in botanical diagnosis. We formalize a Chain of Inquiry framework modeling diagnostic trajectories as ordered question-answer sequences conditioned on grounded visual cues and explicit epistemic intent. We release a dataset of 24,950 expert-curated plant images and 138,068 question-answer pairs annotated with visual grounding, severity labels, and domain-specific reasoning templates. Evaluations on top-tier Multimodal Large Language Models reveal that while they describe visual symptoms adequately, they struggle with safe clinical reasoning and accurate diagnosis. Importantly, structured question-guided inquiry significantly improves diagnostic correctness, reduces hallucination, and increases reasoning efficiency. We hope PlantInquiryVQA serves as a foundational benchmark in advancing research to train diagnostic agents to reason like expert botanists rather than static classifiers.

We present SciArena, an open and collaborative platform for evaluating foundation models on scientific literature tasks. Unlike traditional benchmarks for scientific literature understanding and synthesis, SciArena engages the research community directly, following the Chatbot Arena evaluation approach of community voting on model comparisons. By leveraging collective intelligence, SciArena offers a community-driven evaluation of model performance on open-ended scientific tasks that demand literature-grounded, long-form responses. The platform currently supports 23 open-source and proprietary foundation models and has collected over 13,000 votes from trusted researchers across diverse scientific domains. We analyze the data collected so far and confirm that the submitted questions are diverse, aligned with real-world literature needs, and that participating researchers demonstrate strong self-consistency and inter-annotator agreement in their evaluations. We discuss the results and insights based on the model ranking leaderboard. To further promote research in building model-based automated evaluation systems for literature tasks, we release SciArena-Eval, a meta-evaluation benchmark based on our collected preference data. The benchmark measures the accuracy of models in judging answer quality by comparing their pairwise assessments with human votes. Our experiments highlight the benchmark's challenges and emphasize the need for more reliable automated evaluation methods.

Evaluating large language models (LLMs) is crucial for both assessing their capabilities and identifying safety or robustness issues prior to deployment. Reliably measuring abstract and complex phenomena such as 'safety' and 'robustness' requires strong construct validity, that is, having measures that represent what matters to the phenomenon. With a team of 29 expert reviewers, we conduct a systematic review of 445 LLM benchmarks from leading conferences in natural language processing and machine learning. Across the reviewed articles, we find patterns related to the measured phenomena, tasks, and scoring metrics which undermine the validity of the resulting claims. To address these shortcomings, we provide eight key recommendations and detailed actionable guidance to researchers and practitioners in developing LLM benchmarks.

We present SciRIFF (Scientific Resource for Instruction-Following and Finetuning), a dataset of 137K instruction-following demonstrations for 54 tasks covering five essential scientific literature understanding capabilities: information extraction, summarization, question answering, claim verification, and classification. SciRIFF demonstrations are notable for their long input contexts, detailed task specifications, and complex structured outputs. While instruction-following resources are available in specific domains such as clinical medicine and chemistry, SciRIFF is the first dataset focused on extracting and synthesizing information from research literature across a wide range of scientific fields. To demonstrate the utility of SciRIFF, we develop a sample-efficient strategy to adapt a general instruction-following model for science by performing additional finetuning on a mix of general-domain and SciRIFF demonstrations. In evaluations on nine held-out scientific tasks, our model -- called SciTulu -- improves over a strong LLM baseline by 28.1% and 6.5% at the 7B and 70B scales respectively, while maintaining general instruction-following performance within 2% of the baseline. We are optimistic that SciRIFF will facilitate the development and evaluation of LLMs to help researchers navigate the ever-growing body of scientific literature. We release our dataset, model checkpoints, and data processing and evaluation code to enable further research.

Large language models (LLMs) are rapidly changing how researchers in materials science and chemistry discover, organize, and act on scientific knowledge. This paper analyzes a broad set of community-developed LLM applications in an effort to identify emerging patterns in how these systems can be used across the scientific research lifecycle. We organize the projects into two complementary categories: Knowledge Infrastructure, systems that structure, retrieve, synthesize, and validate scientific information; and Action Systems, systems that execute, coordinate, or automate scientific work across computational and experimental environments. The submissions reveal a shift from single-purpose LLM tools toward integrated, multi-agent workflows that combine retrieval, reasoning, tool use, and domain-specific validation. Prominent themes include retrieval-augmented generation as grounding infrastructure, persistent structured knowledge representations, multimodal and multilingual scientific inputs, and early progress toward laboratory-integrated closed-loop systems. Together, these results suggest that LLMs are evolving from general-purpose assistants into composable infrastructure for scientific reasoning and action. This work provides a community snapshot of that transition and a practical taxonomy for understanding emerging LLM-enabled workflows in materials science and chemistry.

Chemical reasoning usually involves complex, multi-step processes that demand precise calculations, where even minor errors can lead to cascading failures. Furthermore, large language models (LLMs) encounter difficulties handling domain-specific formulas, executing reasoning steps accurately, and integrating code effectively when tackling chemical reasoning tasks. To address these challenges, we present ChemAgent, a novel framework designed to improve the performance of LLMs through a dynamic, self-updating library. This library is developed by decomposing chemical tasks into sub-tasks and compiling these sub-tasks into a structured collection that can be referenced for future queries. Then, when presented with a new problem, ChemAgent retrieves and refines pertinent information from the library, which we call memory, facilitating effective task decomposition and the generation of solutions. Our method designs three types of memory and a library-enhanced reasoning component, enabling LLMs to improve over time through experience. Experimental results on four chemical reasoning datasets from SciBench demonstrate that ChemAgent achieves performance gains of up to 46% (GPT-4), significantly outperforming existing methods. Our findings suggest substantial potential for future applications, including tasks such as drug discovery and materials science. Our code can be found at https://github.com/gersteinlab/chemagent

PlantVillageVQA is a large-scale visual question answering (VQA) dataset derived from the widely used PlantVillage image corpus. It was designed to advance the development and evaluation of vision-language models for agricultural decision-making and analysis. The PlantVillageVQA dataset comprises 193,609 high-quality question-answer (QA) pairs grounded over 55,448 images spanning 14 crop species and 38 disease conditions. Questions are organised into 3 levels of cognitive complexity and 9 distinct categories. Each question category was phrased manually following expert guidance and generated via an automated two-stage pipeline: (1) template-based QA synthesis from image metadata and (2) multi-stage linguistic re-engineering. The dataset was iteratively reviewed by domain experts for scientific accuracy and relevancy. The final dataset was evaluated using three state-of-the-art models for quality assessment. Our objective remains to provide a publicly available, standardised and expert-verified database to enhance diagnostic accuracy for plant disease identifications and advance scientific research in the agricultural domain. Our dataset will be open-sourced at https://huggingface.co/datasets/SyedNazmusSakib/PlantVillageVQA.

The development of accurate and efficient machine learning models for predicting the structure and properties of molecular crystals has been hindered by the scarcity of publicly available datasets of structures with property labels. To address this challenge, we introduce the Open Molecular Crystals 2025 (OMC25) dataset, a collection of over 27 million molecular crystal structures containing 12 elements and up to 300 atoms in the unit cell. The dataset was generated from dispersion-inclusive density functional theory (DFT) relaxation trajectories of over 230,000 randomly generated molecular crystal structures of around 50,000 organic molecules. OMC25 comprises diverse chemical compounds capable of forming different intermolecular interactions and a wide range of crystal packing motifs. We provide detailed information on the dataset's construction, composition, structure, and properties. To demonstrate the quality and use cases of OMC25, we further trained and evaluated state-of-the-art open-source machine learning interatomic potentials. By making this dataset publicly available, we aim to accelerate the development of more accurate and efficient machine learning models for molecular crystals.

In-context learning (ICL) has emerged as a new approach to various natural language processing tasks, utilizing large language models (LLMs) to make predictions based on context that has been supplemented with a few examples or task-specific instructions. In this paper, we aim to extend this method to question answering tasks that utilize structured knowledge sources, and improve Text-to-SQL systems by exploring various prompt design strategies for employing LLMs. We conduct a systematic investigation into different demonstration selection methods and optimal instruction formats for prompting LLMs in the Text-to-SQL task. Our approach involves leveraging the syntactic structure of an example's SQL query to retrieve demonstrations, and we demonstrate that pursuing both diversity and similarity in demonstration selection leads to enhanced performance. Furthermore, we show that LLMs benefit from database-related knowledge augmentations. Our most effective strategy outperforms the state-of-the-art system by 2.5 points (Execution Accuracy) and the best fine-tuned system by 5.1 points on the Spider dataset. These results highlight the effectiveness of our approach in adapting LLMs to the Text-to-SQL task, and we present an analysis of the factors contributing to the success of our strategy.

Identifying the intent of a citation in scientific papers (e.g., background information, use of methods, comparing results) is critical for machine reading of individual publications and automated analysis of the scientific literature. We propose structural scaffolds, a multitask model to incorporate structural information of scientific papers into citations for effective classification of citation intents. Our model achieves a new state-of-the-art on an existing ACL anthology dataset (ACL-ARC) with a 13.3% absolute increase in F1 score, without relying on external linguistic resources or hand-engineered features as done in existing methods. In addition, we introduce a new dataset of citation intents (SciCite) which is more than five times larger and covers multiple scientific domains compared with existing datasets. Our code and data are available at: https://github.com/allenai/scicite.

This paper presents a novel end-to-end deep learning framework for real-time inertial attitude estimation using 6DoF IMU measurements. Inertial Measurement Units are widely used in various applications, including engineering and medical sciences. However, traditional filters used for attitude estimation suffer from poor generalization over different motion patterns and environmental disturbances. To address this problem, we propose two deep learning models that incorporate accelerometer and gyroscope readings as inputs. These models are designed to be generalized to different motion patterns, sampling rates, and environmental disturbances. Our models consist of convolutional neural network layers combined with Bi-Directional Long-Short Term Memory followed by a Fully Forward Neural Network to estimate the quaternion. We evaluate the proposed method on seven publicly available datasets, totaling more than 120 hours and 200 kilometers of IMU measurements. Our results show that the proposed method outperforms state-of-the-art methods in terms of accuracy and robustness. Additionally, our framework demonstrates superior generalization over various motion characteristics and sensor sampling rates. Overall, this paper provides a comprehensive and reliable solution for real-time inertial attitude estimation using 6DoF IMUs, which has significant implications for a wide range of applications.

Engineering design operates through hierarchical abstraction from system specifications to component implementations, requiring visual understanding coupled with mathematical reasoning at each level. While Multi-modal Large Language Models (MLLMs) excel at natural image tasks, their ability to extract mathematical models from technical diagrams remains unexplored. We present CircuitSense, a comprehensive benchmark evaluating circuit understanding across this hierarchy through 8,006+ problems spanning component-level schematics to system-level block diagrams. Our benchmark uniquely examines the complete engineering workflow: Perception, Analysis, and Design, with a particular emphasis on the critical but underexplored capability of deriving symbolic equations from visual inputs. We introduce a hierarchical synthetic generation pipeline consisting of a grid-based schematic generator and a block diagram generator with auto-derived symbolic equation labels. Comprehensive evaluation of six state-of-the-art MLLMs, including both closed-source and open-source models, reveals fundamental limitations in visual-to-mathematical reasoning. Closed-source models achieve over 85\% accuracy on perception tasks involving component recognition and topology identification, yet their performance on symbolic derivation and analytical reasoning falls below 19\%, exposing a critical gap between visual parsing and symbolic reasoning. Models with stronger symbolic reasoning capabilities consistently achieve higher design task accuracy, confirming the fundamental role of mathematical understanding in circuit synthesis and establishing symbolic reasoning as the key metric for engineering competence.

Instruction-based image editing models have recently achieved impressive performance, enabling complex edits to an input image from a multi-instruction prompt. However, these models apply each instruction in the prompt with a fixed strength, limiting the user's ability to precisely and continuously control the intensity of individual edits. We introduce SliderEdit, a framework for continuous image editing with fine-grained, interpretable instruction control. Given a multi-part edit instruction, SliderEdit disentangles the individual instructions and exposes each as a globally trained slider, allowing smooth adjustment of its strength. Unlike prior works that introduced slider-based attribute controls in text-to-image generation, typically requiring separate training or fine-tuning for each attribute or concept, our method learns a single set of low-rank adaptation matrices that generalize across diverse edits, attributes, and compositional instructions. This enables continuous interpolation along individual edit dimensions while preserving both spatial locality and global semantic consistency. We apply SliderEdit to state-of-the-art image editing models, including FLUX-Kontext and Qwen-Image-Edit, and observe substantial improvements in edit controllability, visual consistency, and user steerability. To the best of our knowledge, we are the first to explore and propose a framework for continuous, fine-grained instruction control in instruction-based image editing models. Our results pave the way for interactive, instruction-driven image manipulation with continuous and compositional control.

Representation learning is a critical ingredient for natural language processing systems. Recent Transformer language models like BERT learn powerful textual representations, but these models are targeted towards token- and sentence-level training objectives and do not leverage information on inter-document relatedness, which limits their document-level representation power. For applications on scientific documents, such as classification and recommendation, the embeddings power strong performance on end tasks. We propose SPECTER, a new method to generate document-level embedding of scientific documents based on pretraining a Transformer language model on a powerful signal of document-level relatedness: the citation graph. Unlike existing pretrained language models, SPECTER can be easily applied to downstream applications without task-specific fine-tuning. Additionally, to encourage further research on document-level models, we introduce SciDocs, a new evaluation benchmark consisting of seven document-level tasks ranging from citation prediction, to document classification and recommendation. We show that SPECTER outperforms a variety of competitive baselines on the benchmark.

We propose WIBA, a novel framework and suite of methods that enable the comprehensive understanding of "What Is Being Argued" across contexts. Our approach develops a comprehensive framework that detects: (a) the existence, (b) the topic, and (c) the stance of an argument, correctly accounting for the logical dependence among the three tasks. Our algorithm leverages the fine-tuning and prompt-engineering of Large Language Models. We evaluate our approach and show that it performs well in all the three capabilities. First, we develop and release an Argument Detection model that can classify a piece of text as an argument with an F1 score between 79% and 86% on three different benchmark datasets. Second, we release a language model that can identify the topic being argued in a sentence, be it implicit or explicit, with an average similarity score of 71%, outperforming current naive methods by nearly 40%. Finally, we develop a method for Argument Stance Classification, and evaluate the capability of our approach, showing it achieves a classification F1 score between 71% and 78% across three diverse benchmark datasets. Our evaluation demonstrates that WIBA allows the comprehensive understanding of What Is Being Argued in large corpora across diverse contexts, which is of core interest to many applications in linguistics, communication, and social and computer science. To facilitate accessibility to the advancements outlined in this work, we release WIBA as a free open access platform (wiba.dev).

Social reward as a form of community recognition provides a strong source of motivation for users of online platforms to engage and contribute with content. The recent progress of text-conditioned image synthesis has ushered in a collaborative era where AI empowers users to craft original visual artworks seeking community validation. Nevertheless, assessing these models in the context of collective community preference introduces distinct challenges. Existing evaluation methods predominantly center on limited size user studies guided by image quality and prompt alignment. This work pioneers a paradigm shift, unveiling Social Reward - an innovative reward modeling framework that leverages implicit feedback from social network users engaged in creative editing of generated images. We embark on an extensive journey of dataset curation and refinement, drawing from Picsart: an online visual creation and editing platform, yielding a first million-user-scale dataset of implicit human preferences for user-generated visual art named Picsart Image-Social. Our analysis exposes the shortcomings of current metrics in modeling community creative preference of text-to-image models' outputs, compelling us to introduce a novel predictive model explicitly tailored to address these limitations. Rigorous quantitative experiments and user study show that our Social Reward model aligns better with social popularity than existing metrics. Furthermore, we utilize Social Reward to fine-tune text-to-image models, yielding images that are more favored by not only Social Reward, but also other established metrics. These findings highlight the relevance and effectiveness of Social Reward in assessing community appreciation for AI-generated artworks, establishing a closer alignment with users' creative goals: creating popular visual art. Codes can be accessed at https://github.com/Picsart-AI-Research/Social-Reward

Retrieval-Augmented Generation (RAG) has emerged as a powerful paradigm for grounding large language models in external knowledge sources, improving the precision of agents responses. However, high-dimensional language model embeddings, often in the range of hundreds to thousands of dimensions, can present scalability challenges in terms of storage and latency, especially when processing massive financial text corpora. This paper investigates the use of Principal Component Analysis (PCA) to reduce embedding dimensionality, thereby mitigating computational bottlenecks without incurring large accuracy losses. We experiment with a real-world dataset and compare different similarity and distance metrics under both full-dimensional and PCA-compressed embeddings. Our results show that reducing vectors from 3,072 to 110 dimensions provides a sizeable (up to 60times) speedup in retrieval operations and a sim 28.6times reduction in index size, with only moderate declines in correlation metrics relative to human-annotated similarity scores. These findings demonstrate that PCA-based compression offers a viable balance between retrieval fidelity and resource efficiency, essential for real-time systems such as Zanista AI's Newswitch platform. Ultimately, our study underscores the practicality of leveraging classical dimensionality reduction techniques to scale RAG architectures for knowledge-intensive applications in finance and trading, where speed, memory efficiency, and accuracy must jointly be optimized.

The rapid acceleration of scientific publishing has created substantial challenges for researchers attempting to discover, contextualize, and interpret relevant literature. Traditional keyword-based search systems provide limited semantic understanding, while existing AI-driven tools typically focus on isolated tasks such as retrieval, clustering, or bibliometric visualization. This paper presents an integrated system for scientific literature exploration that combines large-scale data acquisition, hybrid retrieval, semantic topic modeling, and heterogeneous knowledge graph construction. The system builds a comprehensive corpus by merging full-text data from arXiv with structured metadata from OpenAlex. A hybrid retrieval architecture fuses BM25 lexical search with embedding-based semantic search using Reciprocal Rank Fusion. Topic modeling is performed on retrieved results using BERTopic or non-negative matrix factorization depending on computational resources. A knowledge graph unifies papers, authors, institutions, countries, and extracted topics into an interpretable structure. The system provides a multi-layered exploration environment that reveals not only relevant publications but also the conceptual and relational landscape surrounding a query. Evaluation across multiple queries demonstrates improvements in retrieval relevance, topic coherence, and interpretability. The proposed framework contributes an extensible foundation for AI-assisted scientific discovery.

Prompt injection attacks pose a significant security threat to LLM-integrated applications. Model-level defenses have shown strong effectiveness, but are currently deployed into commercial-grade models in a closed-source manner. We believe open-source models are needed by the AI security community, where co-development of attacks and defenses through open research drives scientific progress in mitigation against prompt injection attacks. To this end, we develop Meta SecAlign, the first open-source and open-weight LLM with built-in model-level defense that achieves commercial-grade model performance. We provide complete details of our training recipe, which utilizes an improved version of the SOTA SecAlign defense. Evaluations on 9 utility benchmarks and 7 security benchmarks show that Meta SecAlign, despite being trained on a generic instruction-tuning dataset, confers security in unseen downstream tasks, including tool-calling and agentic web navigation, in addition general instruction-following. Our best model -- Meta-SecAlign-70B -- achieves state-of-the-art robustness against prompt injection attacks and comparable utility to closed-source commercial LLM with model-level defense.

Despite progress in AI-based plant diagnostics, sugarcane farmers in low-resource regions remain vulnerable to leaf diseases due to the lack of scalable, efficient, and interpretable tools. Many deep learning models fail to generalize under real-world conditions and require substantial computational resources, limiting their use in resource-constrained regions. In this paper, we present SugarcaneLD-BD, a curated dataset for sugarcane leaf-disease classification; SugarcaneShuffleNet, an optimized lightweight model for rapid on-device diagnosis; and SugarcaneAI, a Progressive Web Application for field deployment. SugarcaneLD-BD contains 638 curated images across five classes, including four major sugarcane diseases, collected in Bangladesh under diverse field conditions and verified by expert pathologists. To enhance diversity, we combined SugarcaneLD-BD with two additional datasets, yielding a larger and more representative corpus. Our optimized model, SugarcaneShuffleNet, offers the best trade-off between speed and accuracy for real-time, on-device diagnosis. This 9.26 MB model achieved 98.02% accuracy, an F1-score of 0.98, and an average inference time of 4.14 ms per image. For comparison, we fine-tuned five other lightweight convolutional neural networks: MnasNet, EdgeNeXt, EfficientNet-Lite, MobileNet, and SqueezeNet via transfer learning and Bayesian optimization. MnasNet and EdgeNeXt achieved comparable accuracy to SugarcaneShuffleNet, but required significantly more parameters, memory, and computation, limiting their suitability for low-resource deployment. We integrate SugarcaneShuffleNet into SugarcaneAI, delivering Grad-CAM-based explanations in the field. Together, these contributions offer a diverse benchmark, efficient models for low-resource environments, and a practical tool for sugarcane disease classification. It spans varied lighting, backgrounds and devices used on-farm

Epilepsy is one of the most prevalent brain disorders that disrupts the lives of millions worldwide. For patients with drug-resistant seizures, there exist implantable devices capable of monitoring neural activity, promptly triggering neurostimulation to regulate seizures, or alerting patients of potential episodes. Next-generation seizure detection systems heavily rely on high-accuracy machine learning-based classifiers to detect the seizure onset. Here, we propose to enhance the seizure detection performance by learning informative embeddings of the EEG signal. We empirically demonstrate, for the first time, that converting raw EEG signals to appropriate embeddings can significantly boost the performance of seizure detection algorithms. Importantly, we show that embedding features, which converts the raw EEG into an alternative representation, is beneficial for various machine learning models such as Logistic Regression, Multi-Layer Perceptron, Support Vector Machines, and Gradient Boosted Trees. The experiments were conducted on the CHB-MIT scalp EEG dataset. With the proposed EEG feature embeddings, we achieve significant improvements in sensitivity, specificity, and AUC score across multiple models. By employing this approach alongside an SVM classifier, we were able to attain state-of-the-art classification performance with a sensitivity of 100% and specificity of 99%, setting a new benchmark in the field.

Recent progress has pushed AI frontiers from pattern recognition tasks toward problems that require step by step, System2 style reasoning, especially with large language models. Yet, unlike learning, where generalization and out of distribution (OoD) evaluation concepts are well formalized, there is no clear, consistent definition or metric for reasoning ability. We propose Complexity Out of Distribution (Complexity OoD) generalization as a framework and problem setting to define and measure reasoning. A model exhibits Complexity OoD generalization when it maintains performance on test instances whose minimal required solution complexity, either representational (richer solution structure) or computational (more reasoning steps/program length), exceeds that of all training examples. We formalize complexity via solution description Kolmogorov complexity and operational proxies (e.g., object/relation counts; reasoning step counts), clarifying how Complexity OoD differs from length and compositional OoD. This lens unifies learning and reasoning: many cases solvable with System1 like processing at low complexity become System2 like under complexity pressure, while System2 can be viewed as generalization over solution structures. We translate this perspective into practice with recommendations for operationalizing Complexity OoD across the stack: incorporating complexity into benchmark and evaluation metric design, rethinking supervision to target solution traces, seeking and designing inductive biases for Complexity OoD generalization, addressing learning to reason spillovers such as spurious shortcuts, semantic robustness, catastrophic forgetting, and step wise calibration. Because Complexity OoD cannot be solved by scaling data alone, progress toward robust reasoning will require architectures and training regimes that explicitly model and allocate computation with respect to complexity.

In large-scale optimization, the cheapness and effectiveness of update steps are the most crucial factors for a successful optimizer. Sign-based optimizers like Lion or Signum produce cheap per-step updates, whereas Muon's spectral matrix-sign update gives a much stronger direction at a substantially higher per-step cost. In this work, we propose LionMuon, which retains the effectiveness of Muon steps while considerably cutting the averaged iteration cost, similar to sign-based methods. It alternates between Lion's and Muon's updates on a fixed period P, sharing a single dual-EMA momentum buffer between them. The optimizer state memory therefore matches Lion and is exactly half of AdamW's. A simpler single-EMA variant, SignMuon, by itself already outperforms pure Muon. At P = 2, LionMuon Pareto-dominates Muon, Lion, Signum, and AdamW on every dataset and architecture we tested at 124M model size, reaching lower validation loss at lower compute, and the same advantage persists at 355M and 720M scale. On the theory side, we prove sharp complexity bounds under heavy-tailed noise which are governed by period-averaged smoothness and noise that interpolate between Muon's and Lion's constants. These bounds predict the compute-optimal period and the conditions under which LionMuon outruns Muon and Lion. Code: https://github.com/brain-lab-research/lion-muon

Wide-angle lenses are commonly used in perception tasks requiring a large field of view. Unfortunately, these lenses produce significant distortions making conventional models that ignore the distortion effects unable to adapt to wide-angle images. In this paper, we present a novel transformer-based model that automatically adapts to the distortion produced by wide-angle lenses. We leverage the physical characteristics of such lenses, which are analytically defined by the radial distortion profile (assumed to be known), to develop a distortion aware radial swin transformer (DarSwin). In contrast to conventional transformer-based architectures, DarSwin comprises a radial patch partitioning, a distortion-based sampling technique for creating token embeddings, and an angular position encoding for radial patch merging. We validate our method on classification tasks using synthetically distorted ImageNet data and show through extensive experiments that DarSwin can perform zero-shot adaptation to unseen distortions of different wide-angle lenses. Compared to other baselines, DarSwin achieves the best results (in terms of Top-1 accuracy) with significant gains when trained on bounded levels of distortions (very-low, low, medium, and high) and tested on all including out-of-distribution distortions. The code and models are publicly available at https://lvsn.github.io/darswin/

While recently Large Language Models (LLMs) have achieved remarkable successes, they are vulnerable to certain jailbreaking attacks that lead to generation of inappropriate or harmful content. Manual red-teaming requires finding adversarial prompts that cause such jailbreaking, e.g. by appending a suffix to a given instruction, which is inefficient and time-consuming. On the other hand, automatic adversarial prompt generation often leads to semantically meaningless attacks that can easily be detected by perplexity-based filters, may require gradient information from the TargetLLM, or do not scale well due to time-consuming discrete optimization processes over the token space. In this paper, we present a novel method that uses another LLM, called the AdvPrompter, to generate human-readable adversarial prompts in seconds, sim800times faster than existing optimization-based approaches. We train the AdvPrompter using a novel algorithm that does not require access to the gradients of the TargetLLM. This process alternates between two steps: (1) generating high-quality target adversarial suffixes by optimizing the AdvPrompter predictions, and (2) low-rank fine-tuning of the AdvPrompter with the generated adversarial suffixes. The trained AdvPrompter generates suffixes that veil the input instruction without changing its meaning, such that the TargetLLM is lured to give a harmful response. Experimental results on popular open source TargetLLMs show state-of-the-art results on the AdvBench dataset, that also transfer to closed-source black-box LLM APIs. Further, we demonstrate that by fine-tuning on a synthetic dataset generated by AdvPrompter, LLMs can be made more robust against jailbreaking attacks while maintaining performance, i.e. high MMLU scores.

Incident response (IR) requires fast, coordinated, and well-informed decision-making to contain and mitigate cyber threats. While large language models (LLMs) have shown promise as autonomous agents in simulated IR settings, their reasoning is often limited by a lack of access to external knowledge. In this work, we present AutoBnB-RAG, an extension of the AutoBnB framework that incorporates retrieval-augmented generation (RAG) into multi-agent incident response simulations. Built on the Backdoors & Breaches (B&B) tabletop game environment, AutoBnB-RAG enables agents to issue retrieval queries and incorporate external evidence during collaborative investigations. We introduce two retrieval settings: one grounded in curated technical documentation (RAG-Wiki), and another using narrative-style incident reports (RAG-News). We evaluate performance across eight team structures, including newly introduced argumentative configurations designed to promote critical reasoning. To validate practical utility, we also simulate real-world cyber incidents based on public breach reports, demonstrating AutoBnB-RAG's ability to reconstruct complex multi-stage attacks. Our results show that retrieval augmentation improves decision quality and success rates across diverse organizational models. This work demonstrates the value of integrating retrieval mechanisms into LLM-based multi-agent systems for cybersecurity decision-making.

An ultra high energy electromagnetic cascade, a purely leptonic process and initiated by either photons or e^pm, can be a source of high energy neutrinos. We present a public python3 code, MUNHECA, to compute the neutrino spectrum by taking into account various QED processes, with the cascade developing either along the propagation in the cosmic microwave background in the high-redshift universe or in a predefined photon background surrounding the astrophysical source. The user can adjust various settings of MUNHECA, including the spectrum of injected high energy photons, the background photon field and the QED processes governing the cascade evolution. We improve the modeling of several processes, provide examples of the execution of MUNHECA and compare it with some earlier and more simplified estimates of the neutrino spectrum from electromagnetic cascades.

This paper tackles the task of learning to generate signals over triangle meshes in a triangulation-agnostic manner, meaning the trained model can be applied to different meshes and triangulations effectively. Practically, the paper adapts the flow matching (FM) paradigm to a mesh-based, triangulation-agnostic setting. Theoretically, it proposes a specific noise distribution which is triangulation agnostic, to be used inside the FM model's denoising process. While noise distributions are usually trivial to devise for, e.g., images, devising a triangulation-agnostic distribution proves to be a much more difficult task. We formulate a mathematical definition of triangulation agnosticism of distributions, via their spectrum. We then show that a discretization of a specific Gaussian random field called a Matérn process holds these desired properties, and provides a simple and efficient sampling algorithm. We use it as our noise model, and adapt FM to the triangulation-agnostic setting by using a state-of-the-art approach for learning signals on meshes in the gradient domain -- PoissonNet -- as the denoiser. We conduct experiments on elaborate tasks such as sampling elastic rest states, and generating poses of humanoids. Our method is shown to be capable of producing highly realistic results for meshes of over one million triangles, significantly exceeding the state-of-the-art in quality and diversity.

Simulating high-fidelity patients offers a powerful avenue for studying complex diseases while addressing the challenges of fragmented, biased, and privacy-restricted real-world data. In this study, we introduce SynthAgent, a novel Multi-Agent System (MAS) framework designed to model obesity patients with comorbid mental disorders, including depression, anxiety, social phobia, and binge eating disorder. SynthAgent integrates clinical and medical evidence from claims data, population surveys, and patient-centered literature to construct personalized virtual patients enriched with personality traits that influence adherence, emotion regulation, and lifestyle behaviors. Through autonomous agent interactions, the system simulates disease progression, treatment response, and life management across diverse psychosocial contexts. Evaluation of more than 100 generated patients demonstrated that GPT-5 and Claude 4.5 Sonnet achieved the highest fidelity as the core engine in the proposed MAS framework, outperforming Gemini 2.5 Pro and DeepSeek-R1. SynthAgent thus provides a scalable and privacy-preserving framework for exploring patient journeys, behavioral dynamics, and decision-making processes in both medical and psychological domains.

Neuroscience employs diverse neuroimaging techniques, each offering distinct insights into brain activity, from electrophysiological recordings such as EEG, which have high temporal resolution, to hemodynamic modalities such as fMRI, which have increased spatial precision. However, integrating these heterogeneous data sources remains a challenge, which limits a comprehensive understanding of brain function. We present the Spatiotemporal Alignment of Multimodal Brain Activity (SAMBA) framework, which bridges the spatial and temporal resolution gaps across modalities by learning a unified latent space free of modality-specific biases. SAMBA introduces a novel attention-based wavelet decomposition for spectral filtering of electrophysiological recordings, graph attention networks to model functional connectivity between functional brain units, and recurrent layers to capture temporal autocorrelations in brain signal. We show that the training of SAMBA, aside from achieving translation, also learns a rich representation of brain information processing. We showcase this classify external stimuli driving brain activity from the representation learned in hidden layers of SAMBA, paving the way for broad downstream applications in neuroscience research and clinical contexts.

Reasoning is a core capability of large language models, yet understanding how they learn and perform multi-step reasoning remains an open problem. In this study, we explore how different architectures and training methods affect model multi-step reasoning capabilities within a cellular automata framework. By training on state sequences generated with random Boolean functions for random initial conditions to exclude memorization, we demonstrate that most neural architectures learn to abstract the underlying rules. While models achieve high accuracy in next-state prediction, their performance declines sharply if multi-step reasoning is required. We confirm that increasing model depth plays a crucial role for sequential computations. We demonstrate that an extension of the effective model depth with recurrence, memory, and test-time compute scaling substantially enhances reasoning capabilities.

LLMs are increasingly used to brainstorm research ideas, but existing evaluations mostly judge individual ideas by novelty, feasibility, or expert preference. We instead ask: how far are current LLM-generated ideas from human researchers? To characterize this gap, we build a large-scale evaluation framework for ideation from high-quality human research papers. For each paper, we reverse-engineer a small set of closely related prior works that likely inspired its core idea. LLMs are then prompted to generate a new idea from the set of paper titles and summaries. We introduce a two-axis research-taste taxonomy to profile each idea by its opportunity pattern and research paradigm, and use it to quantify the divergence between human and LLM ideas. Across idea sets generated by different LLMs, we observe a consistent distributional gap: LLM ideas are disproportionately concentrated around bridge-like opportunities and synthesis methods, whereas the human paper reference distribution spreads more broadly across ways of framing gaps and constructing contributions. This result suggests that strong LLMs can produce a range of reasonable ideas, but that range remains narrower than, and systematically shifted relative to, human research taste.

Diffusion models have emerged as a powerful paradigm for generation, obtaining strong performance in various domains with continuous-valued inputs. Despite the promises of fully non-autoregressive text generation, applying diffusion models to natural language remains challenging due to its discrete nature. In this work, we propose Text-to-text Self-conditioned Simplex Diffusion (TESS), a text diffusion model that is fully non-autoregressive, employs a new form of self-conditioning, and applies the diffusion process on the logit simplex space rather than the typical learned embedding space. Through extensive experiments on natural language understanding and generation tasks including summarization, text simplification, paraphrase generation, and question generation, we demonstrate that TESS outperforms state-of-the-art non-autoregressive models and is competitive with pretrained autoregressive sequence-to-sequence models.

A single embedding space that covers text, images, video, and audio lets one index serve every query a user can pose. Embedding models built on vision-language backbones now lead text/image/video retrieval benchmarks but lack audio entirely, while audio-text retrieval is led by specialist systems that serve no other modality. We present the Fusion Embedding family, which adds audio to a frozen vision-language embedding base whose parameters are never updated: generation 1 (fusion-embedding-1) trains only a 16.4M-parameter connector between a frozen audio tower and the frozen base, and generation 2 (fusion-embedding-2) adds modality-gated deep adapters (44.2M parameters) whose branch never executes on text, image, or video inputs: their outputs are bit-for-bit those of the released base, verified after every training run. Because the base already binds text, images, and video, aligning audio to text alone makes audio-image retrieval emerge, with zero paired audio-visual training data. Alongside the recipe we map its design space with controlled negative results (rewriting training captions with an LLM, substituting a leaderboard-stronger audio tower, and widening the connector each reduce retrieval) and with training-protocol findings that we expect to transfer to any frozen decoder-LM embedding backbone. Both generations train in hours on a single GPU. Weights, code, and the evaluation harness are openly released.

Latent diffusion models (LDMs) have recently achieved strong performance in 3D medical image synthesis. However, modalities like cine cardiac MRI (CMR), representing a temporally synchronized 3D volume across the cardiac cycle, add an additional dimension that most generative approaches do not model directly. Instead, they factorize space and time or enforce temporal consistency through auxiliary mechanisms such as anatomical masks. Such strategies introduce structural biases that may limit global context integration and lead to subtle spatiotemporal discontinuities or physiologically inconsistent cardiac dynamics. We investigate whether a unified 4D generative model can learn continuous cardiac dynamics without architectural factorization. We propose CardioDiT, a fully 4D latent diffusion framework for short-axis cine CMR synthesis based on diffusion transformers. A spatiotemporal VQ-VAE encodes 2D+t slices into compact latents, which a diffusion transformer then models jointly as complete 3D+t volumes, coupling space and time throughout the generative process. We evaluate CardioDiT on public CMR datasets and a larger private cohort, comparing it to baselines with progressively stronger spatiotemporal coupling. Results show improved inter-slice consistency, temporally coherent motion, and realistic cardiac function distributions, suggesting that explicit 4D modeling with a diffusion transformer provides a principled foundation for spatiotemporal cardiac image synthesis. Code and models trained on public data are available at https://github.com/Cardio-AI/cardiodit.

Autonomous UI agents powered by AI have tremendous potential to boost human productivity by automating routine tasks such as filing taxes and paying bills. However, a major challenge in unlocking their full potential is security, which is exacerbated by the agent's ability to take action on their user's behalf. Existing tests for prompt injections in web agents either over-simplify the threat by testing unrealistic scenarios or giving the attacker too much power, or look at single-step isolated tasks. To more accurately measure progress for secure web agents, we introduce WASP -- a new publicly available benchmark for end-to-end evaluation of Web Agent Security against Prompt injection attacks. Evaluating with WASP shows that even top-tier AI models, including those with advanced reasoning capabilities, can be deceived by simple, low-effort human-written injections in very realistic scenarios. Our end-to-end evaluation reveals a previously unobserved insight: while attacks partially succeed in up to 86% of the case, even state-of-the-art agents often struggle to fully complete the attacker goals -- highlighting the current state of security by incompetence.

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

Large Language Models (LLMs) can achieve enhanced complex problem-solving through test-time computing scaling, yet this often entails longer contexts and numerous reasoning token costs. In this paper, we propose an efficient test-time scaling method that trains LLMs on code-related reasoning trajectories, facilitating their reduction of excess thinking tokens while maintaining performance. First, we create Z1-Code-Reasoning-107K, a curated dataset of simple and complex coding problems paired with their short and long solution trajectories. Second, we present a novel Shifted Thinking Window to mitigate overthinking overhead by removing context-delimiting tags (e.g., <think>. . . </think>) and capping reasoning tokens. Trained with long and short trajectory data and equipped with Shifted Thinking Window, our model, Z1-7B, demonstrates the ability to adjust its reasoning level as the complexity of problems and exhibits efficient test-time scaling across different reasoning tasks that matches R1-Distill-Qwen-7B performance with about 30% of its average thinking tokens. Notably, fine-tuned with only code trajectories, Z1-7B demonstrates generalization to broader reasoning tasks (47.5% on GPQA Diamond). Our analysis of efficient reasoning elicitation also provides valuable insights for future research.

Large language models (LLMs) are increasingly used across the scientific workflow, including to draft peer-review reports. However, many AI-generated reviews are superficial and insufficiently actionable, leaving authors without concrete, implementable guidance and motivating the gap this work addresses. We propose RbtAct, which targets actionable review feedback generation and places existing peer review rebuttal at the center of learning. Rebuttals show which reviewer comments led to concrete revisions or specific plans, and which were only defended. Building on this insight, we leverage rebuttal as implicit supervision to directly optimize a feedback generator for actionability. To support this objective, we propose a new task called perspective-conditioned segment-level review feedback generation, in which the model is required to produce a single focused comment based on the complete paper and a specified perspective such as experiments and writing. We also build a large dataset named RMR-75K that maps review segments to the rebuttal segments that address them, with perspective labels and impact categories that order author uptake. We then train the Llama-3.1-8B-Instruct model with supervised fine-tuning on review segments followed by preference optimization using rebuttal derived pairs. Experiments with human experts and LLM-as-a-judge show consistent gains in actionability and specificity over strong baselines while maintaining grounding and relevance.

Transformer-based models are unable to process long sequences due to their self-attention operation, which scales quadratically with the sequence length. To address this limitation, we introduce the Longformer with an attention mechanism that scales linearly with sequence length, making it easy to process documents of thousands of tokens or longer. Longformer's attention mechanism is a drop-in replacement for the standard self-attention and combines a local windowed attention with a task motivated global attention. Following prior work on long-sequence transformers, we evaluate Longformer on character-level language modeling and achieve state-of-the-art results on text8 and enwik8. In contrast to most prior work, we also pretrain Longformer and finetune it on a variety of downstream tasks. Our pretrained Longformer consistently outperforms RoBERTa on long document tasks and sets new state-of-the-art results on WikiHop and TriviaQA. We finally introduce the Longformer-Encoder-Decoder (LED), a Longformer variant for supporting long document generative sequence-to-sequence tasks, and demonstrate its effectiveness on the arXiv summarization dataset.

Large Language Models (LLMs) frequently hallucinate to long-form questions, producing plausible yet factually incorrect answers. A common mitigation strategy is to provide attribution to LLM outputs. However, existing benchmarks primarily focus on simple attribution that retrieves supporting textual evidence as references. We argue that in real-world scenarios such as financial applications, attribution goes beyond reference retrieval. We introduce FinLFQA, a benchmark designed to evaluate the ability of LLMs to generate long-form answers to complex financial questions with reliable and nuanced attributions. FinLFQA evaluates three critical aspects of attribution through human annotations: (1) supporting evidence extracted from financial reports, (2) intermediate numerical reasoning steps, and (3) domain-specific financial knowledge that informs the reasoning process. We further provide an automatic evaluation framework covering both answer quality and attribution quality. Through extensive experiments on eight LLMs across multiple attribution-generation paradigms, we find that fine-grained metrics are important to distinguish model capabilities, that end-to-end generation achieves comparable performance to post-hoc approaches, and that iterative refinement only helps when guided by external feedback.

Large Language Models (LLMs) increasingly use persistent memory from past interactions to enhance personalization and task performance. However, this memory introduces critical risks when sensitive information is revealed in inappropriate contexts. We present CIMemories, a benchmark for evaluating whether LLMs appropriately control information flow from memory based on task context. CIMemories uses synthetic user profiles with over 100 attributes per user, paired with diverse task contexts in which each attribute may be essential for some tasks but inappropriate for others. Our evaluation reveals that frontier models exhibit up to 69% attribute-level violations (leaking information inappropriately), with lower violation rates often coming at the cost of task utility. Violations accumulate across both tasks and runs: as usage increases from 1 to 40 tasks, GPT-5's violations rise from 0.1% to 9.6%, reaching 25.1% when the same prompt is executed 5 times, revealing arbitrary and unstable behavior in which models leak different attributes for identical prompts. Privacy-conscious prompting does not solve this - models overgeneralize, sharing everything or nothing rather than making nuanced, context-dependent decisions. These findings reveal fundamental limitations that require contextually aware reasoning capabilities, not just better prompting or scaling.

A key goal of current mechanistic interpretability research in NLP is to find linear features (also called "feature vectors") for transformers: directions in activation space corresponding to concepts that are used by a given model in its computation. Present state-of-the-art methods for finding linear features require large amounts of labelled data -- both laborious to acquire and computationally expensive to utilize. In this work, we introduce a novel method, called "observable propagation" (in short: ObsProp), for finding linear features used by transformer language models in computing a given task -- using almost no data. Our paradigm centers on the concept of observables, linear functionals corresponding to given tasks. We then introduce a mathematical theory for the analysis of feature vectors: we provide theoretical motivation for why LayerNorm nonlinearities do not affect the direction of feature vectors; we also introduce a similarity metric between feature vectors called the coupling coefficient which estimates the degree to which one feature's output correlates with another's. We use ObsProp to perform extensive qualitative investigations into several tasks, including gendered occupational bias, political party prediction, and programming language detection. Our results suggest that ObsProp surpasses traditional approaches for finding feature vectors in the low-data regime, and that ObsProp can be used to better understand the mechanisms responsible for bias in large language models. Code for experiments can be found at github.com/jacobdunefsky/ObservablePropagation.

Generating physics diagrams from text requires strict adherence to physical laws. While current generative models produce visually plausible outputs, they systematically hallucinate force vectors, ignore conservation laws, and violate geometric constraints. We present PhyDrawGen, a neuro-symbolic pipeline that decouples semantic scene understanding from physical constraint satisfaction. First, a large language model extracts a typed scene graph from the problem text. A deterministic solver then converts this graph into a Planar Straight-Line Graph (PSLG), encoding force balance, optical paths, and field topologies as exact geometric primitives. Finally, a fine-tuned Qwen-VL model implements a visually grounded propose-verify loop to iteratively correct any constraint violations. Evaluated on a benchmark of 1,449 problems spanning mechanics, optics, and electromagnetism, PhyDrawGen significantly outperforms GPT-5-image, Gemini 2.5 Flash, and Gemini 3 Pro, demonstrating robust physical accuracy even on unusual-object problems.

Automated methods have been widely used to identify and analyze mental health conditions (e.g., depression) from various sources of information, including social media. Yet, deployment of such models in real-world healthcare applications faces challenges including poor out-of-domain generalization and lack of trust in black box models. In this work, we propose approaches for depression detection that are constrained to different degrees by the presence of symptoms described in PHQ9, a questionnaire used by clinicians in the depression screening process. In dataset-transfer experiments on three social media datasets, we find that grounding the model in PHQ9's symptoms substantially improves its ability to generalize to out-of-distribution data compared to a standard BERT-based approach. Furthermore, this approach can still perform competitively on in-domain data. These results and our qualitative analyses suggest that grounding model predictions in clinically-relevant symptoms can improve generalizability while producing a model that is easier to inspect.

We introduce MRMR, the first expert-level multidisciplinary multimodal retrieval benchmark requiring intensive reasoning. MRMR contains 1,502 queries spanning 23 domains, with positive documents carefully verified by human experts. Compared to prior benchmarks, MRMR introduces three key advancements. First, it challenges retrieval systems across diverse areas of expertise, enabling fine-grained model comparison across domains. Second, queries are reasoning-intensive, with images requiring deeper interpretation such as diagnosing microscopic slides. We further introduce Contradiction Retrieval, a novel task requiring models to identify conflicting concepts. Finally, queries and documents are constructed as image-text interleaved sequences. Unlike earlier benchmarks restricted to single images or unimodal documents, MRMR offers a realistic setting with multi-image queries and mixed-modality corpus documents. We conduct an extensive evaluation of 4 categories of multimodal retrieval systems and 14 frontier models on MRMR. The text embedding model Qwen3-Embedding with LLM-generated image captions achieves the highest performance, highlighting substantial room for improving multimodal retrieval models. Although latest multimodal models such as Ops-MM-Embedding perform competitively on expert-domain queries, they fall short on reasoning-intensive tasks. We believe that MRMR paves the way for advancing multimodal retrieval in more realistic and challenging scenarios.

Deep research agents increasingly automate complex information-seeking tasks, producing evidence-grounded reports via multi-step reasoning, tool use, and synthesis. Their growing role demands scalable, reliable evaluation, positioning LLM-as-judge as a supervision paradigm for assessing factual accuracy, evidence use, and reasoning quality. Yet the reliability of these judges for deep research agents remains poorly understood, posing a critical meta-evaluation problem: before deploying LLM judges to supervise research agents, we must first evaluate the judges themselves. Existing meta-evaluations fall short in two ways: (1) reliance on coarse, subjective human-preference agreement; (2) focus on instruction-following or verifiable tasks, leaving open-ended agent executions unexplored. To address these gaps, we introduce REFLECT (REliable Fine-grained LLM judge Evaluation via Controlled inTervention), a meta-evaluation benchmark targeting fine-grained failure detection in agentic environments. REFLECT defines a detailed taxonomy of process- and outcome-level failure modes, instantiated by performing controlled and localized interventions on quality-screened agent execution traces. This yields verifiable, comprehensive, and fine-grained instances for validating the judge models. Our experiments show that current LLM judges remain unreliable: even the best-performing models achieve overall accuracies below 55% across reasoning, tool-use, and report-quality failures, with especially poor performance on evidence verification. Together, our taxonomy and findings expose systematic judge limitations, reveal tradeoffs in cost and reliability, and offer actionable guidance for building more reliable evaluation pipelines for deep research agents.

Cyberbullying or Online harassment detection on social media for various major languages is currently being given a good amount of focus by researchers worldwide. Being the seventh most speaking language in the world and increasing usage of online platform among the Bengali speaking people urge to find effective detection technique to handle the online harassment. In this paper, we have proposed binary and multiclass classification model using hybrid neural network for bully expression detection in Bengali language. We have used 44,001 users comments from popular public Facebook pages, which fall into five classes - Non-bully, Sexual, Threat, Troll and Religious. We have examined the performance of our proposed models from different perspective. Our binary classification model gives 87.91% accuracy, whereas introducing ensemble technique after neural network for multiclass classification, we got 85% accuracy.

In this work, we present the first study to explore inference-time scaling on table reasoning tasks. We develop and evaluate two post-training strategies to enable inference-time scaling: distillation from frontier model reasoning traces and reinforcement learning with verifiable rewards (RLVR). For distillation, we introduce a large-scale dataset of reasoning traces generated by DeepSeek-R1, which we use to fine-tune LLMs into the Table-R1-SFT model. For RLVR, we propose task-specific verifiable reward functions and apply the GRPO algorithm to obtain the Table-R1-Zero model. We evaluate our Table-R1-series models across diverse table reasoning tasks, including short-form QA, fact verification, and free-form QA. Notably, the Table-R1-Zero model matches or exceeds the performance of GPT-4.1 and DeepSeek-R1, while using only a 7B-parameter LLM. It also demonstrates strong generalization to out-of-domain datasets. Extensive ablation and qualitative analyses reveal the benefits of instruction tuning, model architecture choices, and cross-task generalization, as well as emergence of essential table reasoning skills during RL training.

We introduce MCTS-RAG, a novel approach that enhances the reasoning capabilities of small language models on knowledge-intensive tasks by leveraging retrieval-augmented generation (RAG) to provide relevant context and Monte Carlo Tree Search (MCTS) to refine reasoning paths. MCTS-RAG dynamically integrates retrieval and reasoning through an iterative decision-making process. Unlike standard RAG methods, which typically retrieve information independently from reasoning and thus integrate knowledge suboptimally, or conventional MCTS reasoning, which depends solely on internal model knowledge without external facts, MCTS-RAG combines structured reasoning with adaptive retrieval. This integrated approach enhances decision-making, reduces hallucinations, and ensures improved factual accuracy and response consistency. The experimental results on multiple reasoning and knowledge-intensive datasets datasets (i.e., ComplexWebQA, GPQA, and FoolMeTwice) show that our method enables small-scale LMs to achieve performance comparable to frontier LLMs like GPT-4o by effectively scaling inference-time compute, setting a new standard for reasoning in small-scale models.

Readers of academic research papers often read with the goal of answering specific questions. Question Answering systems that can answer those questions can make consumption of the content much more efficient. However, building such tools requires data that reflect the difficulty of the task arising from complex reasoning about claims made in multiple parts of a paper. In contrast, existing information-seeking question answering datasets usually contain questions about generic factoid-type information. We therefore present QASPER, a dataset of 5,049 questions over 1,585 Natural Language Processing papers. Each question is written by an NLP practitioner who read only the title and abstract of the corresponding paper, and the question seeks information present in the full text. The questions are then answered by a separate set of NLP practitioners who also provide supporting evidence to answers. We find that existing models that do well on other QA tasks do not perform well on answering these questions, underperforming humans by at least 27 F1 points when answering them from entire papers, motivating further research in document-grounded, information-seeking QA, which our dataset is designed to facilitate.

Large language models perform well on many medical QA benchmarks, but real clinical reasoning often requires integrating evidence across multiple images rather than interpreting a single view. We introduce MedThinkVQA, an expert-annotated benchmark for thinking with multiple images, where models must interpret each image, combine cross-view evidence, and answer diagnostic questions with intermediate supervision and step-level evaluation. The dataset contains 8,067 cases, including 720 test cases, with an average of 6.62 images per case, substantially denser than prior work, whose expert-level benchmarks use at most 1.43 images per case. On the test set, the best closed-source models, Claude-4.6-Opus, Gemini-3-Pro, and GPT-5.2-xhigh, reach only 57.2%, 55.3%, and 54.9% accuracy, while GPT-5-mini and GPT-5-nano reach 39.7% and 30.8%. Strong open-source models lag behind, led by Qwen3.5-397B-A17B at 52.2% and Qwen3.5-27B at 50.6%. Further analysis identifies grounded multi-image reasoning as the main bottleneck: models often fail to extract, align, and compose evidence across views before higher-level inference can help. Providing expert single-image cues and cross-image summaries improves performance, whereas replacing them with self-generated intermediates reduces accuracy. Step-level analysis shows that over 70% of errors arise from image reading and cross-view integration. Scaling results further show that additional inference-time computation helps only when visual grounding is already reliable; when early evidence extraction is weak, longer reasoning yields limited or unstable gains and can amplify misread cues. These results suggest that the key challenge is not reasoning length alone, but reliable mechanisms for grounding, aligning, and composing distributed evidence across real-world multimodal clinical inputs.

Recent advances in large language models (LLMs) show the potential of using LLMs as evaluators for assessing the quality of text generations from LLMs. However, applying LLM evaluators naively to compare or judge between different systems can lead to unreliable results due to the intrinsic win rate estimation bias of LLM evaluators. In order to mitigate this problem, we propose two calibration methods, Bayesian Win Rate Sampling (BWRS) and Bayesian Dawid-Skene, both of which leverage Bayesian inference to more accurately infer the true win rate of generative language models. We empirically validate our methods on six datasets covering story generation, summarization, and instruction following tasks. We show that both our methods are effective in improving the accuracy of win rate estimation using LLMs as evaluators, offering a promising direction for reliable automatic text quality evaluation.

Constructing scientific multimodal document reasoning datasets for foundation model training involves an inherent trade-off among scale, faithfulness, and realism. To address this challenge, we introduce the synthesize-and-reground framework, a two-stage pipeline comprising: (1) Claim-Centric QA Synthesis, which generates faithful, isolated QA pairs and reasoning on focused segments, and (2) Document-Scale Regrounding, which programmatically re-embeds these pairs into full-document tasks to ensure realistic complexity. Using this framework, we construct SciMDR, a large-scale training dataset for cross-modal comprehension, comprising 300K QA pairs with explicit reasoning chains across 20K scientific papers. We further construct SciMDR-Eval, an expert-annotated benchmark to evaluate multimodal comprehension within full-length scientific workflows. Experiments demonstrate that models fine-tuned on SciMDR achieve significant improvements across multiple scientific QA benchmarks, particularly in those tasks requiring complex document-level reasoning.

Multimodal Mathematical Reasoning (MMR) has recently attracted increasing attention for its capability to solve mathematical problems involving both textual and visual modalities. However, current models still face significant challenges in real-world visual math tasks, often misinterpreting diagrams, failing to align mathematical symbols with visual evidence, or producing inconsistent reasoning steps. Moreover, existing evaluations mainly focus on checking final answers rather than verifying the correctness or executability of each intermediate step. A growing body of recent research addresses these issues by integrating structured perception, explicit alignment, and verifiable reasoning within unified frameworks. To establish a clear roadmap for understanding and comparing different MMR approaches, we systematically review them around four fundamental questions: (1) What to extract from multimodal inputs, (2) How to represent and align textual and visual information, (3) How to perform the reasoning, and (4) How to evaluate the correctness of the overall reasoning process. Finally, we discuss open challenges and share our thoughts on future research directions.

LLM based agents are increasingly deployed in high stakes settings where they process external data sources such as emails, documents, and code repositories. This creates exposure to indirect prompt injection attacks, where adversarial instructions embedded in external content manipulate agent behavior without user awareness. A critical but underexplored dimension of this threat is concealment: since users tend to observe only an agent's final response, an attack can conceal its existence by presenting no clue of compromise in the final user facing response while successfully executing harmful actions. This leaves users unaware of the manipulation and likely to accept harmful outcomes as legitimate. We present findings from a large scale public red teaming competition evaluating this dual objective across three agent settings: tool calling, coding, and computer use. The competition attracted 464 participants who submitted 272000 attack attempts against 13 frontier models, yielding 8648 successful attacks across 41 scenarios. All models proved vulnerable, with attack success rates ranging from 0.5% (Claude Opus 4.5) to 8.5% (Gemini 2.5 Pro). We identify universal attack strategies that transfer across 21 of 41 behaviors and multiple model families, suggesting fundamental weaknesses in instruction following architectures. Capability and robustness showed weak correlation, with Gemini 2.5 Pro exhibiting both high capability and high vulnerability. To address benchmark saturation and obsoleteness, we will endeavor to deliver quarterly updates through continued red teaming competitions. We open source the competition environment for use in evaluations, along with 95 successful attacks against Qwen that did not transfer to any closed source model. We share model-specific attack data with respective frontier labs and the full dataset with the UK AISI and US CAISI to support robustness research.

Ensuring the safety of language models (LMs) while maintaining their usefulness remains a critical challenge in AI alignment. Current approaches rely on sequential adversarial training: generating adversarial prompts and fine-tuning LMs to defend against them. We introduce a different paradigm: framing safety alignment as a non-zero-sum game between an Attacker LM and a Defender LM trained jointly via online reinforcement learning. Each LM continuously adapts to the other's evolving strategies, driving iterative improvement. Our method uses a preference-based reward signal derived from pairwise comparisons instead of point-wise scores, providing more robust supervision and potentially reducing reward hacking. Our RL recipe, AdvGame, shifts the Pareto frontier of safety and utility, yielding a Defender LM that is simultaneously more helpful and more resilient to adversarial attacks. In addition, the resulting Attacker LM converges into a strong, general-purpose red-teaming agent that can be directly deployed to probe arbitrary target models.

Large language models (LLMs) are transforming the landscape of medicine, yet two fundamental challenges persist: keeping up with rapidly evolving medical knowledge and providing verifiable, evidence-grounded reasoning. Retrieval-augmented generation (RAG) has been widely adopted to address these limitations by supplementing model outputs with retrieved evidence. However, whether RAG reliably achieves these goals remains unclear. Here, we present the most comprehensive expert evaluation of RAG in medicine to date. Eighteen medical experts contributed a total of 80,502 annotations, assessing 800 model outputs generated by GPT-4o and Llama-3.1-8B across 200 real-world patient and USMLE-style queries. We systematically decomposed the RAG pipeline into three components: (i) evidence retrieval (relevance of retrieved passages), (ii) evidence selection (accuracy of evidence usage), and (iii) response generation (factuality and completeness of outputs). Contrary to expectation, standard RAG often degraded performance: only 22% of top-16 passages were relevant, evidence selection remained weak (precision 41-43%, recall 27-49%), and factuality and completeness dropped by up to 6% and 5%, respectively, compared with non-RAG variants. Retrieval and evidence selection remain key failure points for the model, contributing to the overall performance drop. We further show that simple yet effective strategies, including evidence filtering and query reformulation, substantially mitigate these issues, improving performance on MedMCQA and MedXpertQA by up to 12% and 8.2%, respectively. These findings call for re-examining RAG's role in medicine and highlight the importance of stage-aware evaluation and deliberate system design for reliable medical LLM applications.

Controllable image synthesis models allow creation of diverse images based on text instructions or guidance from a reference image. Recently, denoising diffusion probabilistic models have been shown to generate more realistic imagery than prior methods, and have been successfully demonstrated in unconditional and class-conditional settings. We investigate fine-grained, continuous control of this model class, and introduce a novel unified framework for semantic diffusion guidance, which allows either language or image guidance, or both. Guidance is injected into a pretrained unconditional diffusion model using the gradient of image-text or image matching scores, without re-training the diffusion model. We explore CLIP-based language guidance as well as both content and style-based image guidance in a unified framework. Our text-guided synthesis approach can be applied to datasets without associated text annotations. We conduct experiments on FFHQ and LSUN datasets, and show results on fine-grained text-guided image synthesis, synthesis of images related to a style or content reference image, and examples with both textual and image guidance.

The scientific claim verification task requires an NLP system to label scientific documents which Support or Refute an input claim, and to select evidentiary sentences (or rationales) justifying each predicted label. In this work, we present MultiVerS, which predicts a fact-checking label and identifies rationales in a multitask fashion based on a shared encoding of the claim and full document context. This approach accomplishes two key modeling goals. First, it ensures that all relevant contextual information is incorporated into each labeling decision. Second, it enables the model to learn from instances annotated with a document-level fact-checking label, but lacking sentence-level rationales. This allows MultiVerS to perform weakly-supervised domain adaptation by training on scientific documents labeled using high-precision heuristics. Our approach outperforms two competitive baselines on three scientific claim verification datasets, with particularly strong performance in zero / few-shot domain adaptation experiments. Our code and data are available at https://github.com/dwadden/multivers.

We introduce PRIMERA, a pre-trained model for multi-document representation with a focus on summarization that reduces the need for dataset-specific architectures and large amounts of fine-tuning labeled data. PRIMERA uses our newly proposed pre-training objective designed to teach the model to connect and aggregate information across documents. It also uses efficient encoder-decoder transformers to simplify the processing of concatenated input documents. With extensive experiments on 6 multi-document summarization datasets from 3 different domains on zero-shot, few-shot and full-supervised settings, PRIMERA outperforms current state-of-the-art dataset-specific and pre-trained models on most of these settings with large margins. The code and pre-trained models can be found at https://github.com/allenai/PRIMER.

We introduce scientific claim verification, a new task to select abstracts from the research literature containing evidence that SUPPORTS or REFUTES a given scientific claim, and to identify rationales justifying each decision. To study this task, we construct SciFact, a dataset of 1.4K expert-written scientific claims paired with evidence-containing abstracts annotated with labels and rationales. We develop baseline models for SciFact, and demonstrate that simple domain adaptation techniques substantially improve performance compared to models trained on Wikipedia or political news. We show that our system is able to verify claims related to COVID-19 by identifying evidence from the CORD-19 corpus. Our experiments indicate that SciFact will provide a challenging testbed for the development of new systems designed to retrieve and reason over corpora containing specialized domain knowledge. Data and code for this new task are publicly available at https://github.com/allenai/scifact. A leaderboard and COVID-19 fact-checking demo are available at https://scifact.apps.allenai.org.

Although considerable attention has been given to neural ranking architectures recently, far less attention has been paid to the term representations that are used as input to these models. In this work, we investigate how two pretrained contextualized language models (ELMo and BERT) can be utilized for ad-hoc document ranking. Through experiments on TREC benchmarks, we find that several existing neural ranking architectures can benefit from the additional context provided by contextualized language models. Furthermore, we propose a joint approach that incorporates BERT's classification vector into existing neural models and show that it outperforms state-of-the-art ad-hoc ranking baselines. We call this joint approach CEDR (Contextualized Embeddings for Document Ranking). We also address practical challenges in using these models for ranking, including the maximum input length imposed by BERT and runtime performance impacts of contextualized language models.

The emergence of LLM-based agents represents a paradigm shift in AI, enabling autonomous systems to plan, reason, use tools, and maintain memory while interacting with dynamic environments. This paper provides the first comprehensive survey of evaluation methodologies for these increasingly capable agents. We systematically analyze evaluation benchmarks and frameworks across four critical dimensions: (1) fundamental agent capabilities, including planning, tool use, self-reflection, and memory; (2) application-specific benchmarks for web, software engineering, scientific, and conversational agents; (3) benchmarks for generalist agents; and (4) frameworks for evaluating agents. Our analysis reveals emerging trends, including a shift toward more realistic, challenging evaluations with continuously updated benchmarks. We also identify critical gaps that future research must address-particularly in assessing cost-efficiency, safety, and robustness, and in developing fine-grained, and scalable evaluation methods. This survey maps the rapidly evolving landscape of agent evaluation, reveals the emerging trends in the field, identifies current limitations, and proposes directions for future research.

Computer-use agents provide a promising path toward general software automation because they can interact directly with arbitrary graphical user interfaces instead of relying on brittle, application-specific integrations. Despite recent advances in benchmark performance, strong computer-use agents remain expensive and slow in practice, since most systems invoke large multimodal models at nearly every interaction step. We argue that this uniform allocation of compute is fundamentally inefficient for long-horizon GUI tasks. Such trajectories are highly heterogeneous: many steps are routine and can be handled reliably by smaller, cheaper policies, while errors tend to concentrate at a relatively small number of high-risk moments. Across computer-use benchmarks, these failures repeatedly take two forms: progress stalls, where the agent loops, repeats ineffective actions, or fails to make meaningful progress, and silent semantic drift, where the agent continues taking locally plausible actions after already deviating from the user's true goal. To address this inefficiency, we propose an event-driven, step-level cascade for computer-use agents that runs a small policy by default and escalates to a stronger model only when lightweight learned monitors detect elevated risk. Our framework combines two complementary signals: a Stuck Monitor that detects degraded progress from recent reasoning-action history and triggers recovery, and a Milestone Monitor that identifies semantically meaningful checkpoints where sparse verification is most informative for catching drift. This design turns always-on frontier-model inference into adaptive, on-demand compute allocation over the course of an evolving interaction. The framework is modular and deployment-oriented: it can be layered on top of existing computer-use agents without changing the underlying agent architecture or retraining the large model.

Existing methods on understanding the capabilities of LLMs in logical reasoning rely on binary entailment classification or synthetically derived rationales, which are not sufficient for proper investigation of model's capabilities. We present P-FOLIO, a human-annotated dataset consisting of diverse and complex reasoning chains for a set of realistic logical reasoning stories also written by humans. P-FOLIO is collected with an annotation protocol that facilitates humans to annotate well-structured natural language proofs for first-order logic reasoning problems in a step-by-step manner. The number of reasoning steps in P-FOLIO span from 0 to 20. We further use P-FOLIO to evaluate and improve large-language-model (LLM) reasoning capabilities. We evaluate LLM reasoning capabilities at a fine granularity via single-step inference rule classification, with more diverse inference rules of more diverse and higher levels of complexities than previous works. Given that a single model-generated reasoning chain could take a completely different path than the human-annotated one, we sample multiple reasoning chains from a model and use pass@k metrics for evaluating the quality of model-generated reasoning chains. We show that human-written reasoning chains significantly boost the logical reasoning capabilities of LLMs via many-shot prompting and fine-tuning. Furthermore, fine-tuning Llama3-7B on P-FOLIO improves the model performance by 10% or more on three other out-of-domain logical reasoning datasets. We also conduct detailed analysis to show where most powerful LLMs fall short in reasoning. We will release the dataset and code publicly.

We introduce MMVU, a comprehensive expert-level, multi-discipline benchmark for evaluating foundation models in video understanding. MMVU includes 3,000 expert-annotated questions spanning 27 subjects across four core disciplines: Science, Healthcare, Humanities & Social Sciences, and Engineering. Compared to prior benchmarks, MMVU features three key advancements. First, it challenges models to apply domain-specific knowledge and perform expert-level reasoning to analyze specialized-domain videos, moving beyond the basic visual perception typically assessed in current video benchmarks. Second, each example is annotated by human experts from scratch. We implement strict data quality controls to ensure the high quality of the dataset. Finally, each example is enriched with expert-annotated reasoning rationals and relevant domain knowledge, facilitating in-depth analysis. We conduct an extensive evaluation of 32 frontier multimodal foundation models on MMVU. The latest System-2-capable models, o1 and Gemini 2.0 Flash Thinking, achieve the highest performance among the tested models. However, they still fall short of matching human expertise. Through in-depth error analyses and case studies, we offer actionable insights for future advancements in expert-level, knowledge-intensive video understanding for specialized domains.

The systematic evaluation and understanding of computer vision models under varying conditions require large amounts of data with comprehensive and customized labels, which real-world vision datasets rarely satisfy. While current synthetic data generators offer a promising alternative, particularly for embodied AI tasks, they often fall short for computer vision tasks due to low asset and rendering quality, limited diversity, and unrealistic physical properties. We introduce the BEHAVIOR Vision Suite (BVS), a set of tools and assets to generate fully customized synthetic data for systematic evaluation of computer vision models, based on the newly developed embodied AI benchmark, BEHAVIOR-1K. BVS supports a large number of adjustable parameters at the scene level (e.g., lighting, object placement), the object level (e.g., joint configuration, attributes such as "filled" and "folded"), and the camera level (e.g., field of view, focal length). Researchers can arbitrarily vary these parameters during data generation to perform controlled experiments. We showcase three example application scenarios: systematically evaluating the robustness of models across different continuous axes of domain shift, evaluating scene understanding models on the same set of images, and training and evaluating simulation-to-real transfer for a novel vision task: unary and binary state prediction. Project website: https://behavior-vision-suite.github.io/

Real-world clinical text-to-SQL requires reasoning over heterogeneous EHR tables, temporal windows, and patient-similarity cohorts to produce executable queries. We introduce CLINSQL, a benchmark of 633 expert-annotated tasks on MIMIC-IV v3.1 that demands multi-table joins, clinically meaningful filters, and executable SQL. Solving CLINSQL entails navigating schema metadata and clinical coding systems, handling long contexts, and composing multi-step queries beyond traditional text-to-SQL. We evaluate 22 proprietary and open-source models under Chain-of-Thought self-refinement and use rubric-based SQL analysis with execution checks that prioritize critical clinical requirements. Despite recent advances, performance remains far from clinical reliability: on the test set, GPT-5-mini attains 74.7% execution score, DeepSeek-R1 leads open-source at 69.2% and Gemini-2.5-Pro drops from 85.5% on Easy to 67.2% on Hard. Progress on CLINSQL marks tangible advances toward clinically reliable text-to-SQL for real-world EHR analytics.

With Large Language Models (LLMs) being widely used across various tasks, detecting errors in their responses is increasingly crucial. However, little research has been conducted on error detection of LLM responses. Collecting error annotations on LLM responses is challenging due to the subjective nature of many NLP tasks, and thus previous research focuses on tasks of little practical value (e.g., word sorting) or limited error types (e.g., faithfulness in summarization). This work introduces ReaLMistake, the first error detection benchmark consisting of objective, realistic, and diverse errors made by LLMs. ReaLMistake contains three challenging and meaningful tasks that introduce objectively assessable errors in four categories (reasoning correctness, instruction-following, context-faithfulness, and parameterized knowledge), eliciting naturally observed and diverse errors in responses of GPT-4 and Llama 2 70B annotated by experts. We use ReaLMistake to evaluate error detectors based on 12 LLMs. Our findings show: 1) Top LLMs like GPT-4 and Claude 3 detect errors made by LLMs at very low recall, and all LLM-based error detectors perform much worse than humans. 2) Explanations by LLM-based error detectors lack reliability. 3) LLMs-based error detection is sensitive to small changes in prompts but remains challenging to improve. 4) Popular approaches to improving LLMs, including self-consistency and majority vote, do not improve the error detection performance. Our benchmark and code are provided at https://github.com/psunlpgroup/ReaLMistake.

The rapid advancement in capabilities of large language models (LLMs) raises a pivotal question: How can LLMs accelerate scientific discovery? This work tackles the crucial first stage of research, generating novel hypotheses. While recent work on automated hypothesis generation focuses on multi-agent frameworks and extending test-time compute, none of the approaches effectively incorporate transparency and steerability through a synergistic Human-in-the-loop (HITL) approach. To address this gap, we introduce IRIS: Interactive Research Ideation System, an open-source platform designed for researchers to leverage LLM-assisted scientific ideation. IRIS incorporates innovative features to enhance ideation, including adaptive test-time compute expansion via Monte Carlo Tree Search (MCTS), fine-grained feedback mechanism, and query-based literature synthesis. Designed to empower researchers with greater control and insight throughout the ideation process. We additionally conduct a user study with researchers across diverse disciplines, validating the effectiveness of our system in enhancing ideation. We open-source our code at https://github.com/Anikethh/IRIS-Interactive-Research-Ideation-System

While Multimodal Large Language Models (MLLMs) have demonstrated remarkable proficiency in tasks such as abnormality detection and report generation for anatomical modalities, their capability in functional imaging remains largely unexplored. In this work, we identify and quantify a fundamental functional perception gap: the inability of current vision encoders to decode functional tracer biodistribution independent of morphological priors. Identifying Positron Emission Tomography (PET) as the quintessential modality to investigate this disconnect, we introduce PET-Bench, the first large-scale functional imaging benchmark comprising 52,308 hierarchical QA pairs from 9,732 multi-site, multi-tracer PET studies. Extensive evaluation of 19 state-of-the-art MLLMs reveals a critical safety hazard termed the Chain-of-Thought (CoT) hallucination trap. We observe that standard CoT prompting, widely considered to enhance reasoning, paradoxically decouples linguistic generation from visual evidence in PET, producing clinically fluent but factually ungrounded diagnoses. To resolve this, we propose Atomic Visual Alignment (AVA), a simple fine-tuning strategy that enforces the mastery of low-level functional perception prior to high-level diagnostic reasoning. Our results demonstrate that AVA effectively bridges the perception gap, transforming CoT from a source of hallucination into a robust inference tool and improving diagnostic accuracy by up to 14.83%. Code and data are available at https://github.com/yezanting/PET-Bench.

Recent large-scale Vision Language Action (VLA) models have shown superior performance in robotic manipulation tasks guided by natural language. However, their generalization remains limited when applied to novel objects or unfamiliar environments that lie outside the training distribution. To address this, many existing approaches integrate additional components such as depth estimation, segmentation, or even diffusion to improve generalization, at the cost of adding significant computation overhead, resulting in low efficiency. This motivates the exploration of efficient action prediction methods, which are independent of additional high-level visual representations or diffusion techniques. In this work, we propose VOTE, an efficient and general framework for the optimization and acceleration of VLA models. In details, we propose a novel tokenizer-free fine-tuning approach for parallel accurate action prediction, which reduces computational overhead and accelerates inference speed. Additionally, we adopt an ensemble voting strategy for the action sampling, which significantly improves model performance and enhances generalization. Experimental results show that our method achieves state-of-the-art performance with 35x faster inference and 145 Hz throughput. All the details and codes will be open-sourced.

With worldwide concerns surrounding the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2), there is a rapidly growing body of scientific literature on the virus. Clinicians, researchers, and policy-makers need to be able to search these articles effectively. In this work, we present a zero-shot ranking algorithm that adapts to COVID-related scientific literature. Our approach filters training data from another collection down to medical-related queries, uses a neural re-ranking model pre-trained on scientific text (SciBERT), and filters the target document collection. This approach ranks top among zero-shot methods on the TREC COVID Round 1 leaderboard, and exhibits a P@5 of 0.80 and an nDCG@10 of 0.68 when evaluated on both Round 1 and 2 judgments. Despite not relying on TREC-COVID data, our method outperforms models that do. As one of the first search methods to thoroughly evaluate COVID-19 search, we hope that this serves as a strong baseline and helps in the global crisis.