Daily Papers

While encoder-only models such as BERT and ModernBERT are ubiquitous in real-world NLP applications, their conventional reliance on task-specific classification heads can limit their applicability compared to decoder-based large language models (LLMs). In this work, we introduce ModernBERT-Large-Instruct, a 0.4B-parameter encoder model that leverages its masked language modelling (MLM) head for generative classification. Our approach employs an intentionally simple training loop and inference mechanism that requires no heavy pre-processing, heavily engineered prompting, or architectural modifications. ModernBERT-Large-Instruct exhibits strong zero-shot performance on both classification and knowledge-based tasks, outperforming similarly sized LLMs on MMLU and achieving 93% of Llama3-1B's MMLU performance with 60% less parameters. We also demonstrate that, when fine-tuned, the generative approach using the MLM head matches or even surpasses traditional classification-head methods across diverse NLU tasks.This capability emerges specifically in models trained on contemporary, diverse data mixes, with models trained on lower volume, less-diverse data yielding considerably weaker performance. Although preliminary, these results demonstrate the potential of using the original generative masked language modelling head over traditional task-specific heads for downstream tasks. Our work suggests that further exploration into this area is warranted, highlighting many avenues for future improvements.

Existing research shows that AI-generated text detection classifiers achieve strong in-distribution (ID) performance but do not maintain the same performance on out-of-distribution (OOD) texts, suggesting overfitting to dataset-specific features. However, combining different training datasets doesn't always improve performance and, in some cases, can even encourage shortcut learning. To address this issue, we fine-tune BERT-tiny models with Bayesian classification heads to select texts across three different datasets to use as a consolidated training set. We trained three different classifiers: fine-tuned DeBERTa-V3-large and ModernBERT-large classifiers via empirical X-risk minimization, and an MCGrad model that calibrates the predictions from the ModernBERT-large classifier. The DeBERTa-V3-large-large classifier achieves a mean score of 0.882 on the PAN 2026 test set across five metrics: AUROC, F_1, C@1, Brier score, and F_{0.5u}. ModernBERT-large achieves a score of 0.96 while MCGrad achieves the best score of the three with a mean score of 0.974, ranking second on the leaderboard. Our results highlight that careful dataset curation can lead to strong OOD performance. We release our ModernBERT-large and DeBERTa-V3-large models at https://huggingface.co/collections/ShantanuT01/panclef-2026 .

Large Language Models (LLMs) are increasingly powerful but remain vulnerable to prompt injection attacks, where malicious inputs cause the model to deviate from its intended instructions. This paper introduces Sentinel, a novel detection model, qualifire/prompt-injection-sentinel, based on the \answerdotai/ModernBERT-large architecture. By leveraging ModernBERT's advanced features and fine-tuning on an extensive and diverse dataset comprising a few open-source and private collections, Sentinel achieves state-of-the-art performance. This dataset amalgamates varied attack types, from role-playing and instruction hijacking to attempts to generate biased content, alongside a broad spectrum of benign instructions, with private datasets specifically targeting nuanced error correction and real-world misclassifications. On a comprehensive, unseen internal test set, Sentinel demonstrates an average accuracy of 0.987 and an F1-score of 0.980. Furthermore, when evaluated on public benchmarks, it consistently outperforms strong baselines like protectai/deberta-v3-base-prompt-injection-v2. This work details Sentinel's architecture, its meticulous dataset curation, its training methodology, and a thorough evaluation, highlighting its superior detection capabilities.

Since the inception of BERT, encoder-only Transformers have evolved significantly in computational efficiency, training stability, and long-context modeling. ModernBERT consolidates these advances by integrating Rotary Positional Embeddings (RoPE), FlashAttention, and refined normalization. Despite these developments, Turkish NLP lacks a monolingual encoder trained from scratch incorporating such modern architectural paradigms. This work introduces TabiBERT, a monolingual Turkish encoder based on ModernBERT architecture trained from scratch on a large, curated corpus. TabiBERT is pre-trained on one trillion tokens sampled from an 84.88B token multi-domain corpus: web text (73%), scientific publications (20%), source code (6%), and mathematical content (0.3%). The model supports 8,192-token context length (16x original BERT), achieves up to 2.65x inference speedup, and reduces GPU memory consumption, enabling larger batch sizes. We introduce TabiBench with 28 datasets across eight task categories with standardized splits and protocols, evaluated using GLUE-style macro-averaging. TabiBERT attains 77.58 on TabiBench, outperforming BERTurk by 1.62 points and establishing state-of-the-art on five of eight categories: question answering (+9.55), code retrieval (+2.41), and document retrieval (+0.60). Compared with task-specific prior best results, including specialized models like TurkishBERTweet, TabiBERT achieves +1.47 average improvement, indicating robust cross-domain generalization. We release model weights, training configurations, and evaluation code for transparent, reproducible Turkish encoder research.

Diversity has been gaining interest in the NLP community in recent years. At the same time, state-of-the-art transformer models such as ModernBERT use very large pre-training datasets, which are driven by size rather than by diversity. This summons for an investigation of the impact of diversity on the ModernBERT pre-training. We do so in this study, with the express intent of reducing pre-training dataset size, while retaining at least comparable performance. We compare diversity-driven sampling algorithms, so as to pick the best one. We find that diversity-driven sampling allows in some tasks to gain 10 points relative to randomly-sampled pre-training data of commensurate size. We also see that a model pre-trained for 483h on a diversity-driven dataset of 150M tokens can yield a commensurate performance to a model pre-trained for 1,775h on a randomly-driven dataset of 2.4B tokens.

Encoder-only transformer models like BERT are widely adopted as a pre-trained backbone for tasks like sentence classification and retrieval. However, pretraining of encoder models with large-scale corpora and long contexts has been relatively underexplored compared to decoder-only transformers. In this work, we present llm-jp-modernbert, a ModernBERT model trained on a publicly available, massive Japanese corpus with a context length of 8192 tokens. While our model does not surpass existing baselines on downstream tasks, it achieves good results on fill-mask test evaluations. We also analyze the effect of context length expansion through pseudo-perplexity experiments. Furthermore, we investigate sentence embeddings in detail, analyzing their transitions during training and comparing them with those from other existing models, confirming similar trends with models sharing the same architecture. To support reproducibility and foster the development of long-context BERT, we release our model, along with the training and evaluation code.

Encoder-based transformer models are central to biomedical and clinical Natural Language Processing (NLP), as their bidirectional self-attention makes them well-suited for efficiently extracting structured information from unstructured text through discriminative tasks. However, encoders have seen slower development compared to decoder models, leading to limited domain adaptation in biomedical and clinical settings. We introduce BioClinical ModernBERT, a domain-adapted encoder that builds on the recent ModernBERT release, incorporating long-context processing and substantial improvements in speed and performance for biomedical and clinical NLP. BioClinical ModernBERT is developed through continued pretraining on the largest biomedical and clinical corpus to date, with over 53.5 billion tokens, and addresses a key limitation of prior clinical encoders by leveraging 20 datasets from diverse institutions, domains, and geographic regions, rather than relying on data from a single source. It outperforms existing biomedical and clinical encoders on four downstream tasks spanning a broad range of use cases. We release both base (150M parameters) and large (396M parameters) versions of BioClinical ModernBERT, along with training checkpoints to support further research.

Tracking how data is mentioned and used in research papers provides critical insights for improving data discoverability, quality, and production. However, manually identifying and classifying dataset mentions across vast academic literature is resource-intensive and not scalable. This paper presents a machine learning framework that automates dataset mention detection across research domains by leveraging large language models (LLMs), synthetic data, and a two-stage fine-tuning process. We employ zero-shot extraction from research papers, an LLM-as-a-Judge for quality assessment, and a reasoning agent for refinement to generate a weakly supervised synthetic dataset. The Phi-3.5-mini instruct model is pre-fine-tuned on this dataset, followed by fine-tuning on a manually annotated subset. At inference, a ModernBERT-based classifier efficiently filters dataset mentions, reducing computational overhead while maintaining high recall. Evaluated on a held-out manually annotated sample, our fine-tuned model outperforms NuExtract-v1.5 and GLiNER-large-v2.1 in dataset extraction accuracy. Our results highlight how LLM-generated synthetic data can effectively address training data scarcity, improving generalization in low-resource settings. This framework offers a pathway toward scalable monitoring of dataset usage, enhancing transparency, and supporting researchers, funders, and policymakers in identifying data gaps and strengthening data accessibility for informed decision-making.

High-quality corpora are essential for advancing Natural Language Processing (NLP) in Portuguese. Building on previous encoder-only models such as BERTimbau and Albertina PT-BR, we introduce NorBERTo, a modern encoder based on the ModernBERT architecture, featuring long-context support and efficient attention mechanisms. NorBERTo is trained on Aurora-PT, a newly curated Brazilian Portuguese corpus comprising 331 billion GPT-2 tokens collected from diverse web sources and existing multilingual datasets. We systematically benchmark NorBERTo against Strong baselines on semantic similarity, textual entailment and classification tasks using standardized datasets such as ASSIN 2 and PLUE. On PLUE, NorBERTo-large achieves the best results among the encoder models we evaluated, notably reaching 0.9191 F1 on MRPC and 0.7689 accuracy on RTE. On ASSIN 2, NorBERTo-large attains the highest entailment F1 (~0.904) among all encoders considered, although Albertina-900M and BERTimbau-large still hold an advantage. To the best of our knowledge, Aurora-PT is currently the largest openly available monolingual Portuguese corpus, surpassing previous resources. NorBERTo provides a modern, mid-sized encoder designed for realistic deployment scenarios: it is straight-forward to fine-tune, efficient to serve, and well suited as a backbone for retrieval-augmented generation and other downstream Portuguese NLP systems.

Transformer-based language models such as BERT have become foundational in NLP, yet their performance degrades in specialized domains like patents, which contain long, technical, and legally structured text. Prior approaches to patent NLP have primarily relied on fine-tuning general-purpose models or domain-adapted variants pretrained with limited data. In this work, we pretrain 3 domain-specific masked language models for patents, using the ModernBERT architecture and a curated corpus of over 60 million patent records. Our approach incorporates architectural optimizations, including FlashAttention, rotary embeddings, and GLU feed-forward layers. We evaluate our models on four downstream patent classification tasks. Our model, ModernBERT-base-PT, consistently outperforms the general-purpose ModernBERT baseline on three out of four datasets and achieves competitive performance with a baseline PatentBERT. Additional experiments with ModernBERT-base-VX and Mosaic-BERT-large demonstrate that scaling the model size and customizing the tokenizer further enhance performance on selected tasks. Notably, all ModernBERT variants retain substantially faster inference over - 3x that of PatentBERT - underscoring their suitability for time-sensitive applications. These results underscore the benefits of domain-specific pretraining and architectural improvements for patent-focused NLP tasks.

We introduce Clinical ModernBERT, a transformer based encoder pretrained on large scale biomedical literature, clinical notes, and medical ontologies, incorporating PubMed abstracts, MIMIC IV clinical data, and medical codes with their textual descriptions. Building on ModernBERT the current state of the art natural language text encoder featuring architectural upgrades such as rotary positional embeddings (RoPE), Flash Attention, and extended context length up to 8,192 tokens our model adapts these innovations specifically for biomedical and clinical domains. Clinical ModernBERT excels at producing semantically rich representations tailored for long context tasks. We validate this both by analyzing its pretrained weights and through empirical evaluation on a comprehensive suite of clinical NLP benchmarks.

Encoder-only transformer models remain essential for production NLP pipelines. We introduce moBERTo, a Portuguese adaptation of ModernBERT obtained through continued pretraining of the ModernBERT-base checkpoint on 60 billion tokens (5 epochs over a 12-billion-token corpus curated from FineWeb2 and filtered with educational and STEM classifiers). We preserve the original architecture, including rotary positional embeddings, alternating local-global attention, flash attention, and unpadding. We evaluate moBERTo across information retrieval (including long-context retrieval at up to 8,192 tokens), document classification, named entity recognition, and natural language understanding. Our best variant, which combines a Portuguese tokenizer with subword-matching embedding transfer and long-context post-training, achieves the highest average reranking nDCG@10 across three Portuguese retrieval benchmarks and the best results on PLUE-PT. Through ablation studies, we show that (i) continued pretraining is strongly preferable to training from scratch, particularly for preserving long-context capabilities; (ii) tokenizer adaptation improves token-level tasks but degrades long-context retrieval; (iii) a dedicated long-context post-training phase at 8,192 tokens further improves reranking and NER; and (iv) encoder-only architectures remain competitive with larger decoder-only alternatives for discriminative tasks. We publicly release the model weights at https://huggingface.co/Tropic-AI/moBERTo and training data at https://huggingface.co/datasets/Tropic-AI/moberto-pretraining-dataset-c4-compatible on Hugging Face.

When adapting an encoder to a new domain, the standard approach is to continue training with Masked Language Modeling (MLM). We show that temporarily switching to Causal Language Modeling (CLM) followed by a short MLM decay improves downstream performance. On biomedical texts with ModernBERT, this CLM detour outperforms MLM baselines trained on identical data and compute across 8 French and 11 English biomedical tasks, by +1.2-2.8pp and +0.3-0.8pp respectively, depending on model size. We investigate the reasons for these gains. We find that CLM's dense supervision impacts low transformer layers (0-7) far more than MLM does. Freezing low layers during CLM eliminates the downstream benefit; freezing mid layers preserves it. The representational changes persist through the MLM decay phase, even when it matches the CLM phase in length, and they scale with model capacity. We release ModernCamemBERT-bio and ModernBERT-bio as state-of-the-art biomedical encoders in Base and Large sizes.

Encoder-only transformer models such as BERT offer a great performance-size tradeoff for retrieval and classification tasks with respect to larger decoder-only models. Despite being the workhorse of numerous production pipelines, there have been limited Pareto improvements to BERT since its release. In this paper, we introduce ModernBERT, bringing modern model optimizations to encoder-only models and representing a major Pareto improvement over older encoders. Trained on 2 trillion tokens with a native 8192 sequence length, ModernBERT models exhibit state-of-the-art results on a large pool of evaluations encompassing diverse classification tasks and both single and multi-vector retrieval on different domains (including code). In addition to strong downstream performance, ModernBERT is also the most speed and memory efficient encoder and is designed for inference on common GPUs.

Learned sparse retrieval (LSR) models such as SPLADE have traditionally used BERT-style masked language models as backbone encoders. A natural expectation is that replacing BERT with stronger pretrained encoders should improve retrieval effectiveness. However, we find that under standard SPLADE training recipes, backbones with large MLM-head L2 norms can suffer performance degradation and even training collapse under standard SPLADE training recipes. We identify this failure as a scale mismatch in the MLM head: SPLADE directly uses MLM-head outputs to construct sparse lexical representations, and query-document relevance is computed by an unnormalized dot product over these representations. As a result, an inflated MLM-head scale can amplify sparse activations, distort matching scores, and destabilize contrastive training under common training settings. To address this issue, we introduce a simple initialization-time correction that rescales the MLM-head projection by a constant factor before SPLADE training. This zero-cost adjustment improves training stability without modifying the model architecture or training objective. Across both in-domain and out-of-domain retrieval benchmarks, this simple correction substantially improves large-norm backbones such as ModernBERT and Ettin, turning unstable training runs into competitive sparse retrievers. In several settings, the corrected models further match or surpass the classic BERT-SPLADE baseline. These findings suggest that the bottleneck in adapting pretrained encoders to LSR is not encoder capacity alone, but the calibration of the MLM-head scale used to construct sparse lexical representations.

Recent innovations in architecture, pre-training, and fine-tuning have led to the remarkable in-context learning and reasoning abilities of large auto-regressive language models such as LLaMA and DeepSeek. In contrast, encoders like BERT and RoBERTa have not seen the same level of progress despite being foundational for many downstream NLP applications. To bridge this gap, we introduce NeoBERT, a next-generation encoder that redefines the capabilities of bidirectional models by integrating state-of-the-art advancements in architecture, modern data, and optimized pre-training methodologies. NeoBERT is designed for seamless adoption: it serves as a plug-and-play replacement for existing base models, relies on an optimal depth-to-width ratio, and leverages an extended context length of 4,096 tokens. Despite its compact 250M parameter footprint, it achieves state-of-the-art results on the massive MTEB benchmark, outperforming BERT large, RoBERTa large, NomicBERT, and ModernBERT under identical fine-tuning conditions. In addition, we rigorously evaluate the impact of each modification on GLUE and design a uniform fine-tuning and evaluation framework for MTEB. We release all code, data, checkpoints, and training scripts to accelerate research and real-world adoption.

Multimodal embedding models are gaining prevalence, notably for document retrieval as efficient alternatives to text-only pipelines. These models are typically built by finetuning large vision-language decoders (VLMs) with contrastive losses on text-image pairs. In this work, we show that, while cost-efficient, this repurposing approach often bottlenecks retrieval performance. Through controlled experiments, we establish a principled recipe for improving visual document retrieval models. We notably measure the impact of attention masking, image resolution, modality alignment data regimes, and late interaction centered contrastive objectives which emerge as central performance factors. Building on these insights, we release ModernVBERT, a compact 250M-parameter vision-language encoder that outperforms models up to 10 times larger when finetuned on document retrieval tasks. Models and code are made available at https://huggingface.co/ModernVBERT.

Recent advances in Information Retrieval have established transformer-based cross-encoders as a keystone in IR. Recent studies have focused on knowledge distillation and showed that, with the right strategy, traditional cross-encoders could reach the level of effectiveness of LLM re-rankers. Yet, comparisons with previous training strategies, including distillation from strong cross-encoder teachers, remain unclear. In addition, few studies cover a similar range of backbone encoders, while substantial improvements have been made in this area since BERT. This lack of comprehensive studies in controlled environments makes it difficult to identify robust design choices. In this work, we reproduce schlattRankDistiLLMClosingEffectiveness2025 LLM-based distillation strategy and compare it to hofstatterImprovingEfficientNeural2020 approach based on an ensemble of cross-encoder teachers, as well as other supervised objectives, to fine-tune a large range of cross-encoders, from the original BERT and its follow-ups RoBERTa, ELECTRA and DeBERTa-v3, to the more recent ModernBERT. We evaluate all models on both in-domain (TREC-DL and MS~MARCO dev) and out-of-domain datasets (BEIR, LoTTE, and Robust04). Our results show that objectives emphasizing relative comparisons -- pairwise MarginMSE and listwise InfoNCE -- consistently outperform pointwise baselines across all backbones and evaluation settings, and that objective choice can yield gains comparable to scaling the backbone architecture.

Parameter sharing in recursive transformers reduces model size but collapses layer-wise expressivity. We propose Mixture of LoRAs (MoL), a lightweight conditional-computation mechanism that inserts Low-Rank Adaptation (LoRA) experts inside a shared feed-forward network (FFN). MoL enables token-conditional weight-space modulation of the shared FFN without untying backbone parameters, unlike prior approaches that add fixed or externally attached adapters. We pretrain a modernised recursive architecture, ModernALBERT, integrating rotary embeddings, GeGLU, FlashAttention, and a distillation-based initialisation. Across GLUE, SQuAD-v2, and BEIR, ModernALBERT (50M--120M) achieves state-of-the-art performance among compact models and surpasses larger fully parameterised baselines. We also propose an expert-merging procedure that compresses MoL into a single adapter at inference while preserving accuracy, enabling efficient deployment. Our results show that conditional weight-space modulation effectively restores the expressivity lost under aggressive parameter sharing in recursive transformers.