Uploaded May 2025 | Updated September 2026, 1 day ago
Abstract: Discrete diffusion has achieved state-of-the-art performance, outperforming or approaching autoregressive models on standard benchmarks. In this work, we introduce Discrete Diffusion with Planned Denoising (DDPD), a novel framework that separates the generation process into two models: a planner and a denoiser. At inference time, the planner selects which positions to denoise next by identifying the most corrupted positions in need of denoising, including both initially corrupted and those requiring additional refinement. This plan-and-denoise approach enables more efficient reconstruction during generation by iteratively identifying and denoising corruptions in the optimal order. DDPD outperforms traditional denoiser-only mask diffusion methods, achieving superior results on language modeling benchmarks such as text8, OpenWebText, and token-based generation on ImageNet 256×256. Notably, in language modeling, DDPD significantly reduces the performance gap between diffusion-based and autoregressive methods in terms of generative perplexity.
Bio: I am a postdoctoral researcher at MIT in Rafael Gómez-Bombarelli ’s group, and I also collaborate with Tommi Jaakkola ’s group. I received my PhD from Princeton University in 2023, advised by Ryan P. Adams and Peter J. Ramadge . In summer 2021, I interned at Meta Research with Ben Letham and Eytan Bakshy in the Adaptive Experimentation team. I did my undergrad at National University of Singapore and worked with Sinno Jialin Pan at Nanyang Technological University, Singapore.
Abstract: Discrete diffusion has achieved state-of-the-art performance, outperforming or approaching autoregressive models on standard benchmarks. In this work, we introduce Discrete Diffusion with Planned Denoising (DDPD), a novel framework that separates the generation process into two models: a planner and a denoiser. At inference time, the planner selects which positions to denoise next by identifying the most corrupted positions in need of denoising, including both initially corrupted and those requiring additional refinement. This plan-and-denoise approach enables more efficient reconstruction during generation by iteratively identifying and denoising corruptions in the optimal order. DDPD outperforms traditional denoiser-only mask diffusion methods, achieving superior results on language modeling benchmarks such as text8, OpenWebText, and token-based generation on ImageNet 256×256. Notably, in language modeling, DDPD significantly reduces the performance gap between diffusion-based and autoregressive methods in terms of generative perplexity.
Bio: I am a postdoctoral researcher at MIT in Rafael Gómez-Bombarelli ’s group, and I also collaborate with Tommi Jaakkola ’s group. I received my PhD from Princeton University in 2023, advised by Ryan P. Adams and Peter J. Ramadge . In summer 2021, I interned at Meta Research with Ben Letham and Eytan Bakshy in the Adaptive Experimentation team. I did my undergrad at National University of Singapore and worked with Sinno Jialin Pan at Nanyang Technological University, Singapore.









![Language AI for RNA Virus and RNA Vaccine
Abstract:
Linguistics and biology are two sides of the same coin. This talk features several highly unexpected connections between them which yield efficient algorithms with substantial biological impacts. One such connection (Nature, 2023) is between messenger RNA (mRNA) vaccines and formal language theory. Although widely used in COVID, these vaccines still suffer from instability. But how to design more stable and efficient mRNAs? Here we show a surprising reduction of the mRNA design problem to the classical (1961) concept of “lattice parsing” in speech recognition, which enables efficient search in the exponentially large design space. Experiments on COVID and another virus show that our designs dramatically improves mRNA half-life, protein expression, and in vivo antibody response, compared to the standard method used by Pfizer and Moderna. Another connection (PNAS, 2021) is between COVID variants and multilingual parsing. Here we show that aligning and folding various coronavirus genomes (in order to find conserved structures for drug design) can be viewed as “synchronous parsing” for multiple languages. This enables efficient global prediction of COVID genome structure that matches experimental work.
[1] Nature paper: https://www.nature.com/articles/s41586-023-06127-z
[2] Nature news: https://www.nature.com/articles/d41586-023-01487-y (‘Remarkable’ AI tool designs mRNA vaccines that are more potent and stable)
[3] PNAS paper: https://www.pnas.org/doi/10.1073/pnas.2116269118
Bio:
Liang Huang (PhD, Penn, 2008) is a Professor of Computer Science at Oregon State University, and co-founder of Coderna.ai. Until recently, he was also a Distinguished Scientist at Baidu Research USA. He also worked at Google Research, USC, and City Univ. of New York. He was known for algorithms and theory in computational linguistics, where he received several best paper awards (ACL 2008 Best Paper Award, EMNLP 2016 Best Paper Honorable Mentions, NAACL 2022 Best Demo Paper Award) and delivered keynotes at ACL 2019 and CVPR 2021. But in recent years, he has shifted his attention to applying these natural language algorithms to computational biology, esp. RNA folding and RNA design, with the hope of fighting COVID. This line of linguistics-inspired biology work eventually led to PNAS (2021) and Nature (2023) papers, and is widely covered in the media. Language AI for RNA Virus and RNA Vaccine](https://i.ytimg.com/vi/B-fiTnUkq2A/mqdefault.jpg)
