Ambri Ma

Jeffrey Gu, Minkyu Jeon, Ambri Ma et al.

Cryo-electron microscopy (cryo-EM) is an indispensable technique for determining the 3D structures of dynamic biomolecular complexes. While typically applied to image a single molecular species, cryo-EM has the potential for structure determination of many targets simultaneously in a high-throughput fashion. However, existing methods typically focus on modeling conformational heterogeneity within a single or a few structures and are not designed to resolve compositional heterogeneity arising from mixtures of many distinct molecular species. To address this challenge, we propose CryoHype, a transformer-based hypernetwork for cryo-EM reconstruction that dynamically adjusts the weights of an implicit neural representation. Using CryoHype, we achieve state-of-the-art results on a challenging benchmark dataset containing 100 structures. We further demonstrate that CryoHype scales to the reconstruction of 1,000 distinct structures from unlabeled cryo-EM images in the fixed-pose setting.

Ambri Ma, Arnav Kumar, Brett Zeligson

The training of large language models (LLMs) on extensive, unfiltered corpora sourced from the internet is a common and advantageous practice. Consequently, LLMs have learned and inadvertently reproduced various types of biases, including violent, offensive, and toxic language. However, recent research shows that generative pretrained transformer (GPT) language models can recognize their own biases and detect toxicity in generated content, a process referred to as self-diagnosis. In response, researchers have developed a decoding algorithm that allows LLMs to self-debias, or reduce their likelihood of generating harmful text. This study investigates the efficacy of the diagnosing-debiasing approach in mitigating two additional types of biases: insults and political bias. These biases are often used interchangeably in discourse, despite exhibiting potentially dissimilar semantic and syntactic properties. We aim to contribute to the ongoing effort of investigating the ethical and social implications of human-AI interaction.