Daily Papers

Modeling genomic sequences faces two unsolved challenges: the information density varies widely across different regions, while there is no clearly defined minimum vocabulary unit. Relying on either four primitive bases or independently designed DNA tokenizers, existing approaches with naive masked language modeling pre-training often fail to adapt to the varying complexities of genomic sequences. Leveraging Token Merging techniques, this paper introduces a hierarchical architecture that jointly optimizes a dynamic genomic tokenizer and latent Transformers with context-aware pre-training tasks. As for network structures, the tokenization module automatically chunks adjacent bases into words by stacking multiple layers of the differentiable token merging blocks with local-window constraints, then a Latent Encoder captures the global context of these merged words by full-attention blocks. Symmetrically employing a Latent Decoder and a Local Decoder, MergeDNA learns with two pre-training tasks: Merged Token Reconstruction simultaneously trains the dynamic tokenization module and adaptively filters important tokens, while Adaptive Masked Token Modeling learns to predict these filtered tokens to capture informative contents. Extensive experiments show that MergeDNA achieves superior performance on three popular DNA benchmarks and several multi-omics tasks with fine-tuning or zero-shot evaluation, outperforming typical tokenization methods and large-scale DNA foundation models.

Multi-turn reinforcement learning (RL) for multi-modal agents built upon vision-language models (VLMs) is hampered by sparse rewards and long-horizon credit assignment. Recent methods densify the reward by querying a teacher that provides step-level feedback, e.g., Guided Thought Reinforcement (GTR) and On-Policy Distillation, but rely on costly, often privileged models as the teacher, limiting practicality and reproducibility. We introduce GTR-Turbo, a highly efficient upgrade to GTR, which matches the performance without training or querying an expensive teacher model. Specifically, GTR-Turbo merges the weights of checkpoints produced during the ongoing RL training, and then uses this merged model as a "free" teacher to guide the subsequent RL via supervised fine-tuning or soft logit distillation. This design removes dependence on privileged VLMs (e.g., GPT or Gemini), mitigates the "entropy collapse" observed in prior work, and keeps training stable. Across diverse visual agentic tasks, GTR-Turbo improves the accuracy of the baseline model by 10-30% while reducing wall-clock training time by 50% and compute cost by 60% relative to GTR.

Despite the advances in Large Language Models (LLMs), exemplified by models like GPT-4 and Claude, smaller-scale LLMs such as Llama and Mistral often struggle with generating in-depth and coherent dialogues. This paper presents a novel two-step Coarse-to-Fine Actor model to address the inherent limitations in conversational and analytical capabilities of small-sized LLMs. Our approach begins with the Policy-based Coarse Actor, employing a technique we term "Continuous Maximization". The Coarse Actor establishes an enhanced, knowledge-rich pool adept at aligning with human preference styles in analysis and reasoning. Through the RLHF process, it employs Continuous Maximization, a strategy that dynamically and adaptively extends the output length limit, enabling the generation of more detailed and analytical content. Subsequently, the Fine Actor refines this analytical content, addressing the generation of excessively redundant information from the Coarse Actor. We introduce a "Knowledge Residue Merger" approach, refining the content from the Coarse Actor and merging it with an existing Instruction model to improve quality, correctness, and reduce redundancies. We applied our methodology to the popular Mistral model, creating Mistral-C2F, which has demonstrated exceptional performance across 11 general language tasks and the MT-Bench Dialogue task, outperforming similar-scale models and even larger models with 13B and 30B parameters. Our model has significantly improved conversational and analytical reasoning abilities.