Search Results for author: Amy Wang

Found 6 papers, 3 papers with code

Concept Bottleneck Language Models For protein design

1 code implementation9 Nov 2024 Aya Abdelsalam Ismail, Tuomas Oikarinen, Amy Wang, Julius Adebayo, Samuel Stanton, Taylor Joren, Joseph Kleinhenz, Allen Goodman, Héctor Corrada Bravo, Kyunghyun Cho, Nathan C. Frey

We introduce Concept Bottleneck Protein Language Models (CB-pLM), a generative masked language model with a layer where each neuron corresponds to an interpretable concept.

Decision Making Drug Discovery +3

Fine-Tuning Discrete Diffusion Models via Reward Optimization with Applications to DNA and Protein Design

1 code implementation17 Oct 2024 Chenyu Wang, Masatoshi Uehara, Yichun He, Amy Wang, Tommaso Biancalani, Avantika Lal, Tommi Jaakkola, Sergey Levine, Hanchen Wang, Aviv Regev

Finally, we demonstrate the effectiveness of DRAKES in generating DNA and protein sequences that optimize enhancer activity and protein stability, respectively, important tasks for gene therapies and protein-based therapeutics.

Protein Design Reinforcement Learning (RL)

Towards Accurate Differential Diagnosis with Large Language Models

no code implementations30 Nov 2023 Daniel McDuff, Mike Schaekermann, Tao Tu, Anil Palepu, Amy Wang, Jake Garrison, Karan Singhal, Yash Sharma, Shekoofeh Azizi, Kavita Kulkarni, Le Hou, Yong Cheng, Yun Liu, S Sara Mahdavi, Sushant Prakash, Anupam Pathak, Christopher Semturs, Shwetak Patel, Dale R Webster, Ewa Dominowska, Juraj Gottweis, Joelle Barral, Katherine Chou, Greg S Corrado, Yossi Matias, Jake Sunshine, Alan Karthikesalingam, Vivek Natarajan

Comparing the two assisted study arms, the DDx quality score was higher for clinicians assisted by our LLM (top-10 accuracy 51. 7%) compared to clinicians without its assistance (36. 1%) (McNemar's Test: 45. 7, p < 0. 01) and clinicians with search (44. 4%) (4. 75, p = 0. 03).

Diagnostic

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