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Apr 20

AutoPK: Leveraging LLMs and a Hybrid Similarity Metric for Advanced Retrieval of Pharmacokinetic Data from Complex Tables and Documents

Pharmacokinetics (PK) plays a critical role in drug development and regulatory decision-making for human and veterinary medicine, directly affecting public health through drug safety and efficacy assessments. However, PK data are often embedded in complex, heterogeneous tables with variable structures and inconsistent terminologies, posing significant challenges for automated PK data retrieval and standardization. AutoPK, a novel two-stage framework for accurate and scalable extraction of PK data from complex scientific tables. In the first stage, AutoPK identifies and extracts PK parameter variants using large language models (LLMs), a hybrid similarity metric, and LLM-based validation. The second stage filters relevant rows, converts the table into a key-value text format, and uses an LLM to reconstruct a standardized table. Evaluated on a real-world dataset of 605 PK tables, including captions and footnotes, AutoPK shows significant improvements in precision and recall over direct LLM baselines. For instance, AutoPK with LLaMA 3.1-70B achieved an F1-score of 0.92 on half-life and 0.91 on clearance parameters, outperforming direct use of LLaMA 3.1-70B by margins of 0.10 and 0.21, respectively. Smaller models such as Gemma 3-27B and Phi 3-12B with AutoPK achieved 2-7 fold F1 gains over their direct use, with Gemma's hallucination rates reduced from 60-95% down to 8-14%. Notably, AutoPK enabled open-source models like Gemma 3-27B to outperform commercial systems such as GPT-4o Mini on several PK parameters. AutoPK enables scalable and high-confidence PK data extraction, making it well-suited for critical applications in veterinary pharmacology, drug safety monitoring, and public health decision-making, while addressing heterogeneous table structures and terminology and demonstrating generalizability across key PK parameters. Code and data: https://github.com/hosseinsholehrasa/AutoPK

  • 6 authors
·
Sep 26, 2025

Polyglot Teachers: Evaluating Language Models for Multilingual Synthetic Data Generation

Synthesizing supervised finetuning (SFT) data from language models (LMs) to teach smaller models multilingual tasks has become increasingly common. However, teacher model selection is often ad hoc, typically defaulting to the largest available option, even though such models may have significant capability gaps in non-English languages. This practice can result in poor-quality synthetic data and suboptimal student downstream performance. In this work, we systematically characterize what makes an effective multilingual teacher. We measure intrinsic measures of data quality with extrinsic student model performance in a metric we call Polyglot Score; evaluating 10 LMs across 6 typologically diverse languages, generating over 1.4M SFT examples and training 240 student models. Among the models tested, Gemma 3 27B and Aya Expanse 32B emerge as consistently effective teachers across different student base model families. Further analyses reveal that model scale alone does not significantly predict teacher effectiveness; instead, data qualities such as prompt diversity, length, and response fluency capture over 93.3% of variance in intrinsic data quality and predict student performance. Finally, we provide practical recommendations, including matching the model families of teacher-student pairs and translating from or responding to existing prompts, which can yield improvements for less-resourced languages. We hope that our work advances data-centric research in multilingual synthetic data and LM development.

Fanar 2.0: Arabic Generative AI Stack

We present Fanar 2.0, the second generation of Qatar's Arabic-centric Generative AI platform. Sovereignty is a first-class design principle: every component, from data pipelines to deployment infrastructure, was designed and operated entirely at QCRI, Hamad Bin Khalifa University. Fanar 2.0 is a story of resource-constrained excellence: the effort ran on 256 NVIDIA H100 GPUs, with Arabic having only ~0.5% of web data despite 400 million native speakers. Fanar 2.0 adopts a disciplined strategy of data quality over quantity, targeted continual pre-training, and model merging to achieve substantial gains within these constraints. At the core is Fanar-27B, continually pre-trained from a Gemma-3-27B backbone on a curated corpus of 120 billion high-quality tokens across three data recipes. Despite using 8x fewer pre-training tokens than Fanar 1.0, it delivers substantial benchmark improvements: Arabic knowledge (+9.1 pts), language (+7.3 pts), dialects (+3.5 pts), and English capability (+7.6 pts). Beyond the core LLM, Fanar 2.0 introduces a rich stack of new capabilities. FanarGuard is a state-of-the-art 4B bilingual moderation filter for Arabic safety and cultural alignment. The speech family Aura gains a long-form ASR model for hours-long audio. Oryx vision family adds Arabic-aware image and video understanding alongside culturally grounded image generation. An agentic tool-calling framework enables multi-step workflows. Fanar-Sadiq utilizes a multi-agent architecture for Islamic content. Fanar-Diwan provides classical Arabic poetry generation. FanarShaheen delivers LLM-powered bilingual translation. A redesigned multi-layer orchestrator coordinates all components through intent-aware routing and defense-in-depth safety validation. Taken together, Fanar 2.0 demonstrates that sovereign, resource-constrained AI development can produce systems competitive with those built at far greater scale.

  • 37 authors
·
Mar 17

ARIAL: An Agentic Framework for Document VQA with Precise Answer Localization

Document Visual Question Answering (VQA) requires models to not only extract accurate textual answers but also precisely localize them within document images, a capability critical for interpretability in high-stakes applications. However, existing systems achieve strong textual accuracy while producing unreliable spatial grounding, or sacrifice performance for interpretability. We present ARIAL (Agentic Reasoning for Interpretable Answer Localization), a modular framework that orchestrates specialized tools through an LLM-based planning agent to achieve both precise answer extraction and reliable spatial grounding. ARIAL decomposes Document VQA into structured subtasks: OCR-based text extraction with TrOCR, retrieval-augmented context selection using semantic search, answer generation via a fine-tuned Gemma 3-27B model, and explicit bounding-box localization through text-to-region alignment. This modular architecture produces transparent reasoning traces, enabling tool-level auditability and independent component optimization. We evaluate ARIAL on four benchmarks (DocVQA, FUNSD, CORD, and SROIE) using both textual accuracy (ANLS) and spatial precision (mAP at IoU 0.50 to 0.95). ARIAL achieves state-of-the-art results across all datasets: 88.7 ANLS and 50.1 mAP on DocVQA, 90.0 ANLS and 50.3 mAP on FUNSD, 85.5 ANLS and 60.2 mAP on CORD, and 93.1 ANLS on SROIE, surpassing the previous best method (DLaVA) by +2.8 ANLS and +3.9 mAP on DocVQA. Our work demonstrates how agentic orchestration of specialized tools can simultaneously improve performance and interpretability, providing a pathway toward trustworthy, explainable document AI systems.

  • 4 authors
·
Nov 22, 2025

Persona Non Grata: Single-Method Safety Evaluation Is Incomplete for Persona-Imbued LLMs

Personality imbuing customizes LLM behavior, but safety evaluations almost always study prompt-based personas alone. We show this is incomplete: prompting and activation steering expose *different*, architecture-dependent vulnerability profiles, and testing with only one method can miss a model's dominant failure mode. Across 5,568 judged conditions on four standard models from three architecture families, persona danger rankings under system prompting are preserved across all architectures (ρ= 0.71--0.96), but activation-steering vulnerability diverges sharply and cannot be predicted from prompt-side rankings: Llama-3.1-8B is substantially more AS-vulnerable, whereas Gemma-3-27B and Qwen3.5 are more vulnerable to prompting. The most striking illustration of this divergence is the *prosocial persona paradox*: on Llama-3.1-8B, P12 (high conscientiousness + high agreeableness) is among the safest personas under prompting yet becomes the highest-ASR activation-steered persona (ASR ~0.818). This is an inversion robust to coefficient ablation and matched-strength calibration, and replicated on DeepSeek-R1-Distill-Qwen-32B. A trait refusal alignment framework, in which conscientiousness is strongly anti-aligned with refusal on Llama-3.1-8B, offers a partial geometric account. Reasoning provides only partial protection: two 32B reasoning models reach 15--18% prompt-side ASR, and activation steering separates them sharply in both baseline susceptibility and persona-specific vulnerability. Heuristic trace diagnostics suggest that the safer model retains stronger policy recall and self-correction behavior, not merely longer reasoning.

  • 4 authors
·
Apr 13

MedGemma Technical Report

Artificial intelligence (AI) has significant potential in healthcare applications, but its training and deployment faces challenges due to healthcare's diverse data, complex tasks, and the need to preserve privacy. Foundation models that perform well on medical tasks and require less task-specific tuning data are critical to accelerate the development of healthcare AI applications. We introduce MedGemma, a collection of medical vision-language foundation models based on Gemma 3 4B and 27B. MedGemma demonstrates advanced medical understanding and reasoning on images and text, significantly exceeding the performance of similar-sized generative models and approaching the performance of task-specific models, while maintaining the general capabilities of the Gemma 3 base models. For out-of-distribution tasks, MedGemma achieves 2.6-10% improvement on medical multimodal question answering, 15.5-18.1% improvement on chest X-ray finding classification, and 10.8% improvement on agentic evaluations compared to the base models. Fine-tuning MedGemma further improves performance in subdomains, reducing errors in electronic health record information retrieval by 50% and reaching comparable performance to existing specialized state-of-the-art methods for pneumothorax classification and histopathology patch classification. We additionally introduce MedSigLIP, a medically-tuned vision encoder derived from SigLIP. MedSigLIP powers the visual understanding capabilities of MedGemma and as an encoder achieves comparable or better performance than specialized medical image encoders. Taken together, the MedGemma collection provides a strong foundation of medical image and text capabilities, with potential to significantly accelerate medical research and development of downstream applications. The MedGemma collection, including tutorials and model weights, can be found at https://goo.gle/medgemma.

  • 80 authors
·
Jul 7, 2025 2

ScaleBiO: Scalable Bilevel Optimization for LLM Data Reweighting

Bilevel optimization has shown its utility across various machine learning settings, yet most algorithms in practice require second-order information, making it challenging to scale them up. Only recently, a paradigm of first-order algorithms has emerged in the theoretical literature, capable of effectively addressing bilevel optimization problems. Nevertheless, the practical efficiency of this paradigm remains unverified, particularly in the context of large language models (LLMs). This paper introduces the first scalable instantiation of this paradigm called ScaleBiO, focusing on bilevel optimization for large-scale LLM data reweighting. By combining with a recently proposed memory-efficient training technique called LISA, our novel algorithm allows the paradigm to scale to sim30B-sized LLMs on 8timesH100 GPUs, marking the first successful application of bilevel optimization under practical scenarios for large-sized LLMs. Empirically, extensive experiments on data reweighting verify the effectiveness of ScaleBiO for different-scaled models, including Llama-3-8B, Gemma-2-9B, Qwen-2-7B, and Qwen-2.5-32B, where bilevel optimization succeeds in instruction-following and math reasoning tasks, outperforming several popular baselines, including uniform sampling, influence-aware data filtering, and reference-model-based sampling methods. Theoretically, ScaleBiO ensures the optimality of the learned data weights, along with a convergence guarantee matching the conventional first-order bilevel optimization paradigm on smooth and strongly convex objectives.

  • 9 authors
·
Jun 28, 2024

ParamBench: A Graduate-Level Benchmark for Evaluating LLM Understanding on Indic Subjects

Large language models have been widely evaluated on tasks such as comprehension, summarization, code generation, etc. However, their performance on graduate-level, culturally grounded questions in the Indian context remains largely unexplored. Existing Indian benchmarks emphasise basic fact-orientated queries that offer limited assessment of a deeper disciplinary understanding tailored to the Indian setting. In this paper, we present ParamBench, consisting of more than 17K questions in the Hindi language, comprising questionnaires from 21 diverse subjects. These questions are primarily derived from a nationwide graduate-level entrance examination covering topics such as history, music, instruments, yoga, literature, philosophy, law, etc.~ specifically for the Indian context. Additionally, we assess the ability of LLMs to handle diverse question formats - such as list-based matching, assertion-reason pairs, and sequence ordering - alongside conventional multiple-choice questions. We evaluated the performance of more than 16 open source LLMs on this benchmark, observing that Gemma3-27B attains the highest overall accuracy of 56.4\%. Furthermore, subject-wise analysis indicates that even for the best-performing LLMs, performance remains weak on topics such as music, classical instruments, and law, underscoring persistent challenges in culturally grounded reasoning. The dataset and source code is present at https://github.com/ayushbits/ParamBench.

  • 4 authors
·
Aug 22, 2025