OpenRaiser/Intern-Atlas huggingface dataset:
LLaDA-V: Large Language Diffusion Models with Visual Instruction Tuning
Venue: arXiv cs.LG 2025
Year: 2025

In this work, we introduce LLaDA-V, a purely diffusion-based Multimodal Large Language Model (MLLM) that integrates visual instruction tuning with masked diffusion models, representing a departure from the autoregressive paradigms dominant in current multimodal approaches. Built upon LLaDA, a representative large language diffusion model, LLaDA-V incorporates a vision encoder and MLP connector that projects visual features into the language embedding space, enabling effective multimodal alignment. Our empirical investigation reveals several intriguing results: First, LLaDA-V demonstrates promising multimodal performance despite its language model being weaker on purely textual tasks than counterparts like LLaMA3-8B and Qwen2-7B. When trained on the same instruction data, LLaDA-V is highly competitive to LLaMA3-V across multimodal tasks with better data scalability. It also narrows the performance gap to Qwen2-VL, suggesting the effectiveness of its architecture for multimodal tasks. Second, LLaDA-V achieves state-of-the-art performance in multimodal understanding compared to existing hybrid autoregressive-diffusion and purely diffusion-based MLLMs. Our findings suggest that large language diffusion models show promise in multimodal contexts and warrant further investigation in future research. Project page and codes: https://ml-gsai.github.io/LLaDA-V-demo/.
In-Context Watermarks for Large Language Models
Venue: arXiv cs.CL 2025
Year: 2025

The growing use of large language models (LLMs) for sensitive applications has highlighted the need for effective watermarking techniques to ensure the provenance and accountability of AI-generated text. However, most existing watermarking methods require access to the decoding process, limiting their applicability in real-world settings. One illustrative example is the use of LLMs by dishonest reviewers in the context of academic peer review, where conference organizers have no access to the model used but still need to detect AI-generated reviews. Motivated by this gap, we introduce In-Context Watermarking (ICW), which embeds watermarks into generated text solely through prompt engineering, leveraging LLMs' in-context learning and instruction-following abilities. We investigate four ICW strategies at different levels of granularity, each paired with a tailored detection method. We further examine the Indirect Prompt Injection (IPI) setting as a specific case study, in which watermarking is covertly triggered by modifying input documents such as academic manuscripts. Our experiments validate the feasibility of ICW as a model-agnostic, practical watermarking approach. Moreover, our findings suggest that as LLMs become more capable, ICW offers a promising direction for scalable and accessible content attribution.
FoMoH: A clinically meaningful foundation model evaluation for structured electronic health records
Venue: arXiv cs.LG 2025
Year: 2025

Foundation models hold significant promise in healthcare, given their capacity to extract meaningful representations independent of downstream tasks. This property has enabled state-of-the-art performance across several clinical applications trained on structured electronic health record (EHR) data, even in settings with limited labeled data, a prevalent challenge in healthcare. However, there is little consensus on these models' potential for clinical utility due to the lack of desiderata of comprehensive and meaningful tasks and sufficiently diverse evaluations to characterize the benefit over conventional supervised learning. To address this gap, we propose a suite of clinically meaningful tasks spanning patient outcomes, early prediction of acute and chronic conditions, including desiderata for robust evaluations. We evaluate state-of-the-art foundation models on EHR data consisting of 5 million patients from Columbia University Irving Medical Center (CUMC), a large urban academic medical center in New York City, across 14 clinically relevant tasks. We measure overall accuracy, calibration, and subpopulation performance to surface tradeoffs based on the choice of pre-training, tokenization, and data representation strategies. Our study aims to advance the empirical evaluation of structured EHR foundation models and guide the development of future healthcare foundation models.
Bottlenecked Transformers: Periodic KV Cache Consolidation for Generalised Reasoning
Venue: arXiv cs.LG 2025
Year: 2025

Transformer LLMs have been shown to exhibit strong reasoning ability that scales with inference-time compute, most prominently through token-space "thinking" chains of thought. A growing line of work pushes extra computation into the model's latent space, which we term Auxiliary Latent-Space Computation (ALSC). Existing ALSC methods largely fall into three buckets: (i) token-mediated latent rollouts, (ii) residual/activation steering, and (iii) memory (KV) compression. An underexplored alternative is memory consolidation/reconsolidation, two processes in the brain that are responsible for stabilising newly formed memory traces, and, upon recall, transiently rendering established traces plastic such they can integrate new contextual information before restabilising. In Transformer LLMs, this can be seen as analogous to performing in-place rewrites of new KV segments, and rewrites of recalled past segments. In this work, we give a theoretical justification as to why memory (re)consolidation via KV cache rewrites is beneficial for improved reasoning. We do this through the lens of Information Bottleneck (IB) theory, which posits that model generalisation emerges from an optimal balance between input information compression and retention of predictive information in latent representations. We then introduce the Bottlenecked Transformer, which augments a backbone LLM with a Cache Processor, an auxiliary Transformer that performs periodic, non-causal, in-place KV rewrites at newline-delimited reasoning step boundaries. The Processor consolidates recently written KV entries and reconsolidates a small, top-k attention-selected set of prior entries. We evaluate our Bottlenecked Transformer architecture on math reasoning benchmarks. Our model sees consistent performance gains over vanilla Transformers and pause-token augmented baselines, with gains of up to +6.6pp for selected tasks/backbones.
Invisible Prompts, Visible Threats: Malicious Font Injection in External Resources for Large Language Models
Venue: arXiv cs.CR 2025
Year: 2025

Large Language Models (LLMs) are increasingly equipped with capabilities of real-time web search and integrated with protocols like Model Context Protocol (MCP). This extension could introduce new security vulnerabilities. We present a systematic investigation of LLM vulnerabilities to hidden adversarial prompts through malicious font injection in external resources like webpages, where attackers manipulate code-to-glyph mapping to inject deceptive content which are invisible to users. We evaluate two critical attack scenarios: (1) "malicious content relay" and (2) "sensitive data leakage" through MCP-enabled tools. Our experiments reveal that indirect prompts with injected malicious font can bypass LLM safety mechanisms through external resources, achieving varying success rates based on data sensitivity and prompt design. Our research underscores the urgent need for enhanced security measures in LLM deployments when processing external content.
VeriFastScore: Speeding up long-form factuality evaluation
Venue: arXiv cs.CL 2025
Year: 2025

Metrics like FactScore and VeriScore that evaluate long-form factuality operate by decomposing an input response into atomic claims and then individually verifying each claim. While effective and interpretable, these methods incur numerous LLM calls and can take upwards of 100 seconds to evaluate a single response, limiting their practicality in large-scale evaluation and training scenarios. To address this, we propose VeriFastScore, which leverages synthetic data to fine-tune Llama3.1 8B for simultaneously extracting and verifying all verifiable claims within a given text based on evidence from Google Search. We show that this task cannot be solved via few-shot prompting with closed LLMs due to its complexity: the model receives ~4K tokens of evidence on average and needs to concurrently decompose claims, judge their verifiability, and verify them against noisy evidence. However, our fine-tuned VeriFastScore model demonstrates strong correlation with the original VeriScore pipeline at both the example level (r=0.80) and system level (r=0.94) while achieving an overall speedup of 6.6x (9.9x excluding evidence retrieval) over VeriScore. To facilitate future factuality research, we publicly release our VeriFastScore model and synthetic datasets.
LLM as Effective Streaming Processor: Bridging Streaming-Batch Mismatches with Group Position Encoding
Venue: arXiv cs.CL 2025
Year: 2025

Large Language Models (LLMs) are primarily designed for batch processing. Existing methods for adapting LLMs to streaming rely either on expensive re-encoding or specialized architectures with limited scalability. This work identifies three key mismatches in adapting batch-oriented LLMs to streaming: (1) input-attention, (2) output-attention, and (3) position-ID mismatches. While it is commonly assumed that the latter two mismatches require frequent re-encoding, our analysis reveals that only the input-attention mismatch significantly impacts performance, indicating re-encoding outputs is largely unnecessary. To better understand this discrepancy with the common assumption, we provide the first comprehensive analysis of the impact of position encoding on LLMs in streaming, showing that preserving relative positions within source and target contexts is more critical than maintaining absolute order. Motivated by the above analysis, we introduce a group position encoding paradigm built on batch architectures to enhance consistency between streaming and batch modes. Extensive experiments on cross-lingual and cross-modal tasks demonstrate that our method outperforms existing approaches. Our method requires no architectural modifications, exhibits strong generalization in both streaming and batch modes. The code is available at repository https://github.com/EIT-NLP/StreamingLLM.
Dimple: Discrete Diffusion Multimodal Large Language Model with Parallel Decoding
Venue: arXiv cs.CV 2025
Year: 2025

In this work, we propose Dimple, the first Discrete Diffusion Multimodal Large Language Model (DMLLM). We observe that training with a purely discrete diffusion approach leads to significant training instability, suboptimal performance, and severe length bias issues. To address these challenges, we design a novel training paradigm that combines an initial autoregressive phase with a subsequent diffusion phase. This approach yields the Dimple-7B model, trained on the same dataset and using a similar training pipeline as LLaVA-NEXT. Dimple-7B ultimately surpasses LLaVA-NEXT in performance by 3.9%, demonstrating that DMLLM can achieve performance comparable to that of autoregressive models. To improve inference efficiency, we propose a decoding strategy termed confident decoding, which dynamically adjusts the number of tokens generated at each step, significantly reducing the number of generation iterations. In autoregressive models, the number of forward iterations during generation equals the response length. With confident decoding, however, the number of iterations needed by Dimple is even only $\frac{\text{response length}}{3}$. We also re-implement the prefilling technique in autoregressive models and demonstrate that it does not significantly impact performance on most benchmark evaluations, while offering a speedup of 1.5x to 7x. Additionally, we explore Dimple's capability to precisely control its response using structure priors. These priors enable structured responses in a manner distinct from instruction-based or chain-of-thought prompting, and allow fine-grained control over response format and length, which is difficult to achieve in autoregressive models. Overall, this work validates the feasibility and advantages of DMLLM and enhances its inference efficiency and controllability. Code and models are available at https://github.com/yu-rp/Dimple.
PICT -- A Differentiable, GPU-Accelerated Multi-Block PISO Solver for Simulation-Coupled Learning Tasks in Fluid Dynamics
Venue: arXiv cs.LG 2025
Year: 2025

Despite decades of advancements, the simulation of fluids remains one of the most challenging areas of in scientific computing. Supported by the necessity of gradient information in deep learning, differentiable simulators have emerged as an effective tool for optimization and learning in physics simulations. In this work, we present our fluid simulator PICT, a differentiable pressure-implicit solver coded in PyTorch with Graphics-processing-unit (GPU) support. We first verify the accuracy of both the forward simulation and our derived gradients in various established benchmarks like lid-driven cavities and turbulent channel flows before we show that the gradients provided by our solver can be used to learn complicated turbulence models in 2D and 3D. We apply both supervised and unsupervised training regimes using physical priors to match flow statistics. In particular, we learn a stable sub-grid scale (SGS) model for a 3D turbulent channel flow purely based on reference statistics. The low-resolution corrector trained with our solver runs substantially faster than the highly resolved references, while keeping or even surpassing their accuracy. Finally, we give additional insights into the physical interpretation of different solver gradients, and motivate a physically informed regularization technique. To ensure that the full potential of PICT can be leveraged, it is published as open source: https://github.com/tum-pbs/PICT.
Multi-SpatialMLLM: Multi-Frame Spatial Understanding with Multi-Modal Large Language Models
Venue: arXiv cs.CV 2025
Year: 2025

Multi-modal large language models (MLLMs) have rapidly advanced in visual tasks, yet their spatial understanding remains limited to single images, leaving them ill-suited for robotics and other real-world applications that require multi-frame reasoning. In this paper, we propose a framework to equip MLLMs with robust multi-frame spatial understanding by integrating depth perception, visual correspondence, and dynamic perception. Central to our approach is the MultiSPA dataset, a novel, large-scale collection of more than 27 million samples spanning diverse 3D and 4D scenes. Alongside MultiSPA, we introduce a comprehensive benchmark that tests a wide spectrum of spatial tasks under uniform metrics. Our resulting model, Multi-SpatialMLLM, achieves significant gains over baselines and proprietary systems, demonstrating scalable, generalizable multi-frame reasoning. We further observe multi-task benefits and early indications of emergent capabilities in challenging scenarios, and showcase how our model can serve as a multi-frame reward annotator for robotics.
An Affective-Taxis Hypothesis for Alignment and Interpretability
Venue: arXiv cs.AI 2025
Year: 2025

AI alignment is a field of research that aims to develop methods to ensure that agents always behave in a manner aligned with (i.e. consistently with) the goals and values of their human operators, no matter their level of capability. This paper proposes an affectivist approach to the alignment problem, re-framing the concepts of goals and values in terms of affective taxis, and explaining the emergence of affective valence by appealing to recent work in evolutionary-developmental and computational neuroscience. We review the state of the art and, building on this work, we propose a computational model of affect based on taxis navigation. We discuss evidence in a tractable model organism that our model reflects aspects of biological taxis navigation. We conclude with a discussion of the role of affective taxis in AI alignment.
A new classification system of beer categories and styles based on large-scale data mining and self-organizing maps of beer recipes
Venue: arXiv cs.CL 2025
Year: 2025

A data-driven quantitative approach was used to develop a novel classification system for beer categories and styles. Sixty-two thousand one hundred twenty-one beer recipes were mined and analyzed, considering ingredient profiles, fermentation parameters, and recipe vital statistics. Statistical analyses combined with self-organizing maps (SOMs) identified four major superclusters that showed distinctive malt and hop usage patterns, style characteristics, and historical brewing traditions. Cold fermented styles showed a conservative grain and hop composition, whereas hot fermented beers exhibited high heterogeneity, reflecting regional preferences and innovation. This new taxonomy offers a reproducible and objective framework beyond traditional sensory-based classifications, providing brewers, researchers, and educators with a scalable tool for recipe analysis and beer development. The findings in this work provide an understanding of beer diversity and open avenues for linking ingredient usage with fermentation profiles and flavor outcomes.
Towards Robust Evaluation of STEM Education: Leveraging MLLMs in Project-Based Learning
Venue: arXiv cs.CL 2025
Year: 2025

Project-Based Learning (PBL) involves a variety of highly correlated multimodal data, making it a vital educational approach within STEM disciplines. With the rapid development of multimodal large language models (MLLMs), researchers have begun exploring their potential to enhance tasks such as information retrieval, knowledge comprehension, and data generation in educational settings. However, existing benchmarks fall short in providing both a free-form output structure and a rigorous human expert validation process, limiting their effectiveness in evaluating real-world educational tasks. Additionally, few methods have developed automated pipelines to assist with the complex responsibilities of teachers leveraging MLLMs, largely due to model hallucination and instability, which lead to unreliable implementation. To address this gap, we introduce PBLBench, a novel benchmark designed to evaluate complex reasoning grounded in domain-specific knowledge and long-context understanding, thereby challenging models with tasks that closely resemble those handled by human experts. To establish reliable ground truth, we adopt the Analytic Hierarchy Process (AHP), utilizing expert-driven pairwise comparisons to derive structured and weighted evaluation criteria. We assess the performance of 15 leading MLLMs/LLMs using PBLBench and demonstrate that even the most advanced models achieve only 59% rank accuracy, underscoring the significant challenges presented by this benchmark. We believe PBLBench will serve as a catalyst for the development of more capable AI agents, ultimately aiming to alleviate teacher workload and enhance educational productivity.
DO-RAG: A Domain-Specific QA Framework Using Knowledge Graph-Enhanced Retrieval-Augmented Generation
Venue: arXiv cs.CL 2025
Year: 2025

Domain-specific QA systems require not just generative fluency but high factual accuracy grounded in structured expert knowledge. While recent Retrieval-Augmented Generation (RAG) frameworks improve context recall, they struggle with integrating heterogeneous data and maintaining reasoning consistency. To address these challenges, we propose DO-RAG, a scalable and customizable hybrid QA framework that integrates multi-level knowledge graph construction with semantic vector retrieval. Our system employs a novel agentic chain-of-thought architecture to extract structured relationships from unstructured, multimodal documents, constructing dynamic knowledge graphs that enhance retrieval precision. At query time, DO-RAG fuses graph and vector retrieval results to generate context-aware responses, followed by hallucination mitigation via grounded refinement. Experimental evaluations in the database and electrical domains show near-perfect recall and over 94% answer relevancy, with DO-RAG outperforming baseline frameworks by up to 33.38%. By combining traceability, adaptability, and performance efficiency, DO-RAG offers a reliable foundation for multi-domain, high-precision QA at scale.
Improving endpoint detection in end-to-end streaming ASR for conversational speech
Venue: arXiv cs.CL 2025
Year: 2025

ASR endpointing (EP) plays a major role in delivering a good user experience in products supporting human or artificial agents in human-human/machine conversations. Transducer-based ASR (T-ASR) is an end-to-end (E2E) ASR modelling technique preferred for streaming. A major limitation of T-ASR is delayed emission of ASR outputs, which could lead to errors or delays in EP. Inaccurate EP will cut the user off while speaking, returning incomplete transcript while delays in EP will increase the perceived latency, degrading the user experience. We propose methods to improve EP by addressing delayed emission along with EP mistakes. To address the delayed emission problem, we introduce an end-of-word token at the end of each word, along with a delay penalty. The EP delay is addressed by obtaining a reliable frame-level speech activity detection using an auxiliary network. We apply the proposed methods on Switchboard conversational speech corpus and evaluate it against a delay penalty method.
Impact of Frame Rates on Speech Tokenizer: A Case Study on Mandarin and English
Venue: arXiv cs.CL 2025
Year: 2025

The speech tokenizer plays a crucial role in recent speech tasks, generally serving as a bridge between speech signals and language models. While low-frame-rate codecs are widely employed as speech tokenizers, the impact of frame rates on speech tokens remains underexplored. In this study, we investigate how varying frame rates affect speech tokenization by examining Mandarin and English, two typologically distinct languages. We encode speech at different frame rates and evaluate the resulting semantic tokens in the speech recognition task. Our findings reveal that frame rate variations influence speech tokenization differently for each language, highlighting the interplay between frame rates, phonetic density, and language-specific acoustic features. The results provide insights into optimizing frame rate selection for speech tokenizers, with implications for automatic speech recognition, text-to-speech, and other speech-related applications.
Informatics for Food Processing
Venue: arXiv cs.CL 2025
Year: 2025

This chapter explores the evolution, classification, and health implications of food processing, while emphasizing the transformative role of machine learning, artificial intelligence (AI), and data science in advancing food informatics. It begins with a historical overview and a critical review of traditional classification frameworks such as NOVA, Nutri-Score, and SIGA, highlighting their strengths and limitations, particularly the subjectivity and reproducibility challenges that hinder epidemiological research and public policy. To address these issues, the chapter presents novel computational approaches, including FoodProX, a random forest model trained on nutrient composition data to infer processing levels and generate a continuous FPro score. It also explores how large language models like BERT and BioBERT can semantically embed food descriptions and ingredient lists for predictive tasks, even in the presence of missing data. A key contribution of the chapter is a novel case study using the Open Food Facts database, showcasing how multimodal AI models can integrate structured and unstructured data to classify foods at scale, offering a new paradigm for food processing assessment in public health and research.