Biomedical named entity recognition (NER) presents unique challenges due to specialized vocabularies, the sheer volume of entities, and the continuous emergence of novel entities. Traditional NER models, constrained by fixed taxonomies and human annotations, struggle to generalize beyond predefined entity types or efficiently adapt to emerging concepts. To address these issues, we introduce GLiNER-biomed, a domain-adapted suite of Generalist and Lightweight Model for NER (GLiNER) models specifically tailored for biomedical NER. In contrast to conventional approaches, GLiNER uses natural language descriptions to infer arbitrary entity types, enabling zero-shot recognition. Our approach first distills the annotation capabilities of large language models (LLMs) into a smaller, more efficient model, enabling the generation of high-coverage synthetic biomedical NER data. We subsequently train two GLiNER architectures, uni- and bi-encoder, at multiple scales to balance computational efficiency and recognition performance. Evaluations on several biomedical datasets demonstrate that GLiNER-biomed outperforms state-of-the-art GLiNER models in both zero- and few-shot scenarios, achieving 5.96% improvement in F1-score over the strongest baseline. Ablation studies highlight the effectiveness of our synthetic data generation strategy and emphasize the complementary benefits of synthetic biomedical pre-training combined with fine-tuning on high-quality general-domain annotations. All datasets, models, and training pipelines are publicly available at https://github.com/ds4dh/GLiNER-biomed.

Recognizing spans of biomedical concepts and their types (e.g., drug or gene) in free text, often called biomedical named entity recognition (NER), is a basic component of information extraction (IE) pipelines. Without a strong NER component, other applications, such as knowledge discovery and information retrieval, are not practical. State-of-the-art in NER shifted from traditional ML models to deep neural networks with transformer-based encoder models (e.g., BERT) emerging as the current standard. However, decoder models (also called large language models or LLMs) are gaining traction in IE. But LLM-driven NER often ignores positional information due to the generative nature of decoder models. Furthermore, they are computationally very expensive (both in inference time and hardware needs). Hence, it is worth exploring if they actually excel at biomedical NER and assess any associated trade-offs (performance vs efficiency). This is exactly what we do in this effort employing the same BIO entity tagging scheme (that retains positional information) using five different datasets with varying proportions of longer entities. Our results show that the LLMs chosen (Mistral and Llama: 8B range) often outperform best encoder models (BERT-(un)cased, BiomedBERT, and DeBERTav3: 300M range) by 2-8% in F-scores except for one dataset, where they equal encoder performance. This gain is more prominent among longer entities of length >= 3 tokens. However, LLMs are one to two orders of magnitude more expensive at inference time and may need cost prohibitive hardware. Thus, when performance differences are small or real time user feedback is needed, encoder models might still be more suitable than LLMs.

We explore how multimodal Large Language Models (mLLMs) can help researchers transcribe historical documents, extract relevant historical information, and construct datasets from historical sources. Specifically, we investigate the capabilities of mLLMs in performing (1) Optical Character Recognition (OCR), (2) OCR Post-Correction, and (3) Named Entity Recognition (NER) tasks on a set of city directories published in German between 1754 and 1870. First, we benchmark the off-the-shelf transcription accuracy of both mLLMs and conventional OCR models. We find that the best-performing mLLM model significantly outperforms conventional state-of-the-art OCR models and other frontier mLLMs. Second, we are the first to introduce multimodal post-correction of OCR output using mLLMs. We find that this novel approach leads to a drastic improvement in transcription accuracy and consistently produces highly accurate transcriptions (<1% CER), without any image pre-processing or model fine-tuning. Third, we demonstrate that mLLMs can efficiently recognize entities in transcriptions of historical documents and parse them into structured dataset formats. Our findings provide early evidence for the long-term potential of mLLMs to introduce a paradigm shift in the approaches to historical data collection and document transcription.

Text-to-SQL is a challenging task involving multiple reasoning-intensive subtasks, including natural language understanding, database schema comprehension, and precise SQL query formulation. Existing approaches often rely on handcrafted reasoning paths with inductive biases that can limit their overall effectiveness. Motivated by the recent success of reasoning-enhanced models such as DeepSeek R1 and OpenAI o1, which effectively leverage reward-driven self-exploration to enhance reasoning capabilities and generalization, we propose a novel set of partial rewards tailored specifically for the Text-to-SQL task. Our reward set includes schema-linking, AI feedback, n-gram similarity, and syntax check, explicitly designed to address the reward sparsity issue prevalent in reinforcement learning (RL). Leveraging group relative policy optimization (GRPO), our approach explicitly encourages large language models (LLMs) to develop intrinsic reasoning skills necessary for accurate SQL query generation. With models of different sizes, we demonstrate that RL-only training with our proposed rewards consistently achieves higher accuracy and superior generalization compared to supervised fine-tuning (SFT). Remarkably, our RL-trained 14B-parameter model significantly outperforms larger proprietary models, e.g. o3-mini by 4% and Gemini-1.5-Pro-002 by 3% on the BIRD benchmark. These highlight the efficacy of our proposed RL-training framework with partial rewards for enhancing both accuracy and reasoning capabilities in Text-to-SQL tasks.

Soft attention is a critical mechanism powering LLMs to locate relevant parts within a given context. However, individual attention weights are determined by the similarity of only a single query and key token vector. This "single token attention" bottlenecks the amount of information used in distinguishing a relevant part from the rest of the context. To address this issue, we propose a new attention method, Multi-Token Attention (MTA), which allows LLMs to condition their attention weights on multiple query and key vectors simultaneously. This is achieved by applying convolution operations over queries, keys and heads, allowing nearby queries and keys to affect each other's attention weights for more precise attention. As a result, our method can locate relevant context using richer, more nuanced information that can exceed a single vector's capacity. Through extensive evaluations, we demonstrate that MTA achieves enhanced performance on a range of popular benchmarks. Notably, it outperforms Transformer baseline models on standard language modeling tasks, and on tasks that require searching for information within long contexts, where our method's ability to leverage richer information proves particularly beneficial.

Number of Distinct Values (NDV) estimation of a multiset/column is a basis for many data management tasks, especially within databases. Despite decades of research, most existing methods require either a significant amount of samples through uniform random sampling or access to the entire column to produce estimates, leading to substantial data access costs and potentially ineffective estimations in scenarios with limited data access. In this paper, we propose leveraging semantic information, i.e., schema, to address these challenges. The schema contains rich semantic information that can benefit the NDV estimation. To this end, we propose PLM4NDV, a learned method incorporating Pre-trained Language Models (PLMs) to extract semantic schema information for NDV estimation. Specifically, PLM4NDV leverages the semantics of the target column and the corresponding table to gain a comprehensive understanding of the column's meaning. By using the semantics, PLM4NDV reduces data access costs, provides accurate NDV estimation, and can even operate effectively without any data access. Extensive experiments on a large-scale real-world dataset demonstrate the superiority of PLM4NDV over baseline methods. Our code is available at https://github.com/bytedance/plm4ndv.

Instruction-based fine-tuning of large language models (LLMs) has achieved remarkable success in various natural language processing (NLP) tasks. Parameter-efficient fine-tuning (PEFT) methods, such as Mixture of LoRA Experts (MoLE), combine the efficiency of Low-Rank Adaptation (LoRA) with the versatility of Mixture of Experts (MoE) models, demonstrating significant potential for handling multiple downstream tasks. However, the existing routing mechanisms for MoLE often involve a trade-off between computational efficiency and predictive accuracy, and they fail to fully address the diverse expert selection demands across different transformer layers. In this work, we propose DynMoLE, a hybrid routing strategy that dynamically adjusts expert selection based on the Tsallis entropy of the router's probability distribution. This approach mitigates router uncertainty, enhances stability, and promotes more equitable expert participation, leading to faster convergence and improved model performance. Additionally, we introduce an auxiliary loss based on Tsallis entropy to further guide the model toward convergence with reduced uncertainty, thereby improving training stability and performance. Our extensive experiments on commonsense reasoning benchmarks demonstrate that DynMoLE achieves substantial performance improvements, outperforming LoRA by 9.6% and surpassing the state-of-the-art MoLE method, MoLA, by 2.3%. We also conduct a comprehensive ablation study to evaluate the contributions of DynMoLE's key components.

Large language models (LLMs) have the potential to transform medicine, but real-world clinical scenarios contain extraneous information that can hinder performance. The rise of assistive technologies like ambient dictation, which automatically generates draft notes from live patient encounters, has the potential to introduce additional noise making it crucial to assess the ability of LLM's to filter relevant data. To investigate this, we developed MedDistractQA, a benchmark using USMLE-style questions embedded with simulated real-world distractions. Our findings show that distracting statements (polysemous words with clinical meanings used in a non-clinical context or references to unrelated health conditions) can reduce LLM accuracy by up to 17.9%. Commonly proposed solutions to improve model performance such as retrieval-augmented generation (RAG) and medical fine-tuning did not change this effect and in some cases introduced their own confounders and further degraded performance. Our findings suggest that LLMs natively lack the logical mechanisms necessary to distinguish relevant from irrelevant clinical information, posing challenges for real-world applications. MedDistractQA and our results highlights the need for robust mitigation strategies to enhance LLM resilience to extraneous information.

As language models improve and become capable of performing more complex tasks across modalities, evaluating them automatically becomes increasingly challenging. Developing strong and robust task-specific automatic metrics gets harder, and human-annotated test sets -- which are expensive to create -- saturate more quickly. A compelling alternative is to design reliable strategies to automate the creation of test data and evaluation, but previous attempts either rely on pre-existing data, or focus solely on individual tasks. We present Zero-shot Benchmarking (ZSB), a framework for creating high-quality benchmarks for any task by leveraging language models for both synthetic test data creation and evaluation. ZSB is simple and flexible: it requires only the creation of a prompt for data generation and one for evaluation; it is scalable to tasks and languages where collecting real-world data is costly or impractical; it is model-agnostic, allowing the creation of increasingly challenging benchmarks as models improve. To assess the effectiveness of our framework, we create benchmarks for five text-only tasks and a multi-modal one: general capabilities in four languages (English, Chinese, French, and Korean), translation, and general vision-language capabilities in English. We then rank a broad range of open and closed systems on our benchmarks. ZSB rankings consistently correlate strongly with human rankings, outperforming widely-adopted standard benchmarks. Through ablations, we find that strong benchmarks can be created with open models, and that judge model size and dataset variety are crucial drivers of performance. We release all our benchmarks, and code to reproduce our experiments and to produce new benchmarks.

This paper explores a novel perspective to speech quality assessment by leveraging natural language descriptions, offering richer, more nuanced insights than traditional numerical scoring methods. Natural language feedback provides instructive recommendations and detailed evaluations, yet existing datasets lack the comprehensive annotations needed for this approach. To bridge this gap, we introduce QualiSpeech, a comprehensive low-level speech quality assessment dataset encompassing 11 key aspects and detailed natural language comments that include reasoning and contextual insights. Additionally, we propose the QualiSpeech Benchmark to evaluate the low-level speech understanding capabilities of auditory large language models (LLMs). Experimental results demonstrate that finetuned auditory LLMs can reliably generate detailed descriptions of noise and distortion, effectively identifying their types and temporal characteristics. The results further highlight the potential for incorporating reasoning to enhance the accuracy and reliability of quality assessments. The dataset will be released at https://huggingface.co/datasets/tsinghua-ee/QualiSpeech.