Related papers: Diffusion Language Models Are Versatile Protein Le…
Understanding the relationships between protein sequence, structure and function is a long-standing biological challenge with manifold implications from drug design to our understanding of evolution. Recently, protein language models have…
Large Language Models (LLMs) have achieved significant success across various NLP tasks. However, their massive computational costs limit their widespread use, particularly in real-time applications. Structured pruning offers an effective…
Diffusion models (DMs) have achieved state-of-the-art results for image synthesis tasks as well as density estimation. Applied in the latent space of a powerful pretrained autoencoder (LDM), their immense computational requirements can be…
Generative modeling of discrete variables is challenging yet crucial for applications in natural language processing and biological sequence design. We introduce the Shortlisting Model (SLM), a novel simplex-based diffusion model inspired…
Diffusion large language models (dLLMs) have emerged as a new architecture following auto regressive models. Their denoising process offers a powerful generative advantage, but they present significant challenges in learning and…
The design of protein sequences with desired functionalities is a fundamental task in protein engineering. Deep generative methods, such as autoregressive models and diffusion models, have greatly accelerated the discovery of novel protein…
There is considerable interest in predicting the pathogenicity of protein variants in human genes. Due to the sparsity of high quality labels, recent approaches turn to \textit{unsupervised} learning, using Multiple Sequence Alignments…
We propose TraceRL, a trajectory-aware reinforcement learning framework for diffusion language models (DLMs) that incorporates preferred inference trajectory into post-training, and is applicable across different architectures. Equipped…
Recent large language models (LLMs) have demonstrated strong reasoning capabilities that benefits from online reinforcement learning (RL). These capabilities have primarily been demonstrated within the left-to-right autoregressive (AR)…
Protein language models (pLMs) have recently gained significant attention for their ability to uncover relationships between sequence, structure, and function from evolutionary statistics, thereby accelerating therapeutic drug discovery.…
Modern LLM pre-training consumes vast amounts of compute and training data, making the scaling behavior, or scaling laws, of different models a key distinguishing factor. Discrete diffusion language models (DLMs) have been proposed as an…
Large language models have achieved remarkable success under the autoregressive paradigm, yet high-quality text generation need not be tied to a fixed left-to-right order. Existing alternatives still struggle to jointly achieve generation…
Pre-trained language models (PrLM) has been shown powerful in enhancing a broad range of downstream tasks including various dialogue related ones. However, PrLMs are usually trained on general plain text with common language model (LM)…
Language models based on discrete diffusion have attracted widespread interest for their potential to provide faster generation than autoregressive models. Despite their promise, these models typically produce samples whose quality sharply…
Discrete diffusion language models improve generation efficiency through parallel token prediction, but standard $X_0$ prediction methods introduce factorization errors by approximating the clean token posterior with independent token-wise…
Probabilistic graphical modeling (PGM) provides a framework for formulating an interpretable generative process of data and expressing uncertainty about unknowns, but it lacks flexibility. Deep learning (DL) is an alternative framework for…
Geometric deep learning has recently achieved great success in non-Euclidean domains, and learning on 3D structures of large biomolecules is emerging as a distinct research area. However, its efficacy is largely constrained due to the…
Large Language Models (LLMs) have made great strides in areas such as language processing and computer vision. Despite the emergence of diverse techniques to improve few-shot learning capacity, current LLMs fall short in handling the…
Recently, the application of diffusion probabilistic models has advanced speech enhancement through generative approaches. However, existing diffusion-based methods have focused on the generation process in high-dimensional waveform or…
Diffusion models have emerged as a powerful class of generative models, achieving state-of-the-art results in continuous data domains such as image and video generation. Their core mechanism involves a forward diffusion process that…