Chaining thoughts and LLMs to learn DNA structural biophysics

The future development of an AI scientist, a tool that is capable of integrating a variety of experimental data and generating testable hypotheses, holds immense potential. So far, bespoke machine learning models have been created to specialize in singular scientific tasks, but otherwise lack the flexibility of a general purpose model. Here, we show that a general purpose large language model, chatGPT 3.5-turbo, can be fine-tuned to learn the structural biophysics of DNA. We find that both fine-tuning models to return chain-of-thought responses and chaining together models fine-tuned for subtasks have an enhanced ability to analyze and design DNA sequences and their structures.

Reflexion: an autonomous agent with dynamic memory and self-reflection

Recent advancements in decision-making large language model (LLM) agents have demonstrated impressive performance across various benchmarks. However, these state-of-the-art approaches typically necessitate internal model fine-tuning, external model fine-tuning, or policy optimization over a defined state space. Implementing these methods can prove challenging due to the scarcity of high-quality training data or the lack of well-defined state space. Moreover, these agents do not possess certain qualities inherent to human decision-making processes, specifically the ability to learn from mistakes. Self-reflection allows humans to efficiently solve novel problems through a process of trial and error. Building on recent research, we propose Reflexion, an approach that endows an agent with dynamic memory and self-reflection capabilities to enhance its existing reasoning trace and task-specific action choice abilities. To achieve full automation, we introduce a straightforward yet effective heuristic that enables the agent to pinpoint hallucination instances, avoid repetition in action sequences, and, in some environments, construct an internal memory map of the given environment. To assess our approach, we evaluate the agent's ability to complete decision-making tasks in AlfWorld environments and knowledge-intensive, search-based question-and-answer tasks in HotPotQA environments. We observe success rates of 97% and 51%, respectively, and provide a discussion on the emergent property of self-reflection.

Counting in the 2020s: Binned Representations and Inclusive Performance Measures for Deep Crowd Counting Approaches

The data distribution in popular crowd counting datasets is typically heavy tailed and discontinuous. This skew affects all stages within the pipelines of deep crowd counting approaches. Specifically, the approaches exhibit unacceptably large standard deviation wrt statistical measures (MSE, MAE). To address such concerns in a holistic manner, we make two fundamental contributions. Firstly, we modify the training pipeline to accommodate the knowledge of dataset skew. To enable principled and balanced minibatch sampling, we propose a novel smoothed Bayesian binning approach. More specifically, we propose a novel cost function which can be readily incorporated into existing crowd counting deep networks to encourage bin-aware optimization. As the second contribution, we introduce additional performance measures which are more inclusive and throw light on various comparative performance aspects of the deep networks. We also show that our binning-based modifications retain their superiority wrt the newly proposed performance measures. Overall, our contributions enable a practically useful and detail-oriented characterization of performance for crowd counting approaches.