Accuracy
Model Decides How to Tokenize: Adaptive DNA Sequence Tokenization with MxDNA
Foundation models have made significant strides in understanding the genomic language of DNA sequences. However, previous models typically adopt the tok-enization methods designed for natural language, which are unsuitable for DNA sequences due to their unique characteristics. In addition, the optimal approach to tokenize DNA remains largely under-explored, and may not be intuitively understood by humans even if discovered. To address these challenges, we introduce MxDNA, a novel framework where the model autonomously learns an effective DNA tokenization strategy through gradient decent.
Diverging Flows: Detecting Extrapolations in Conditional Generation
Tsakonas, Constantinos, Ivaldi, Serena, Mouret, Jean-Baptiste
The ability of Flow Matching (FM) to model complex conditional distributions has established it as the state-of-the-art for prediction tasks (e.g., robotics, weather forecasting). However, deployment in safety-critical settings is hindered by a critical extrapolation hazard: driven by smoothness biases, flow models yield plausible outputs even for off-manifold conditions, resulting in silent failures indistinguishable from valid predictions. In this work, we introduce Diverging Flows, a novel approach that enables a single model to simultaneously perform conditional generation and native extrapolation detection by structurally enforcing inefficient transport for off-manifold inputs. We evaluate our method on synthetic manifolds, cross-domain style transfer, and weather temperature forecasting, demonstrating that it achieves effective detection of extrapolations without compromising predictive fidelity or inference latency. These results establish Diverging Flows as a robust solution for trustworthy flow models, paving the way for reliable deployment in domains such as medicine, robotics, and climate science.