ChemLLM: A Chemical Large Language Model

Large language models (LLMs) have made impressive progress in chemistry applications, including molecular property prediction, molecular generation, experimental protocol design, etc. However, the community lacks a dialogue-based model specifically designed for chemistry. The challenge arises from the fact that most chemical data and scientific knowledge are primarily stored in structured databases, and the direct use of these structured data compromises the model's ability to maintain coherent dialogue. To tackle this issue, we develop a novel template-based instruction construction method that transforms structured knowledge into plain dialogue, making it suitable for language model training. By leveraging this approach, we develop ChemLLM, the first large language model dedicated to chemistry, capable of performing various tasks across chemical disciplines with smooth dialogue interaction. ChemLLM beats GPT-3.5 on all three principal tasks in chemistry, i.e., name conversion, molecular caption, and reaction prediction, and surpasses GPT-4 on two of them. Remarkably, ChemLLM also shows exceptional adaptability to related mathematical and physical tasks despite being trained mainly on chemical-centric corpora. Furthermore, ChemLLM demonstrates proficiency in specialized NLP tasks within chemistry, such as literature translation and cheminformatic programming. ChemLLM opens up a new avenue for exploration within chemical studies, while our method of integrating structured chemical knowledge into dialogue systems sets a new frontier for developing LLMs across various scientific fields. Codes, Datasets, and Model weights are publicly accessible at hf.co/AI4Chem/ChemLLM-7B-Chat.

Poisson Process for Bayesian Optimization

BayesianOptimization(BO) is a sample-efficient black-box optimizer, and extensive methods have been proposed to build the absolute function response of the black-box function through a probabilistic surrogate model, including Tree-structured Parzen Estimator (TPE), random forest (SMAC), and Gaussian process (GP). However, few methods have been explored to estimate the relative rankings of candidates, which can be more robust to noise and have better practicality than absolute function responses, especially when the function responses are intractable but preferences can be acquired. To this end, we propose a novel ranking-based surrogate model based on the Poisson process and introduce an efficient BO framework, namely Poisson Process Bayesian Optimization (PoPBO). Two tailored acquisition functions are further derived from classic LCB and EI to accommodate it. Compared to the classic GP-BO method, our PoPBO has lower computation costs and better robustness to noise, which is verified by abundant experiments. The results on both simulated and real-world benchmarks, including hyperparameter optimization (HPO) and neural architecture search (NAS), show the effectiveness of PoPBO.

Enhancing Human Experience in Human-Agent Collaboration: A Human-Centered Modeling Approach Based on Positive Human Gain

Existing game AI research mainly focuses on enhancing agents' abilities to win games, but this does not inherently make humans have a better experience when collaborating with these agents. For example, agents may dominate the collaboration and exhibit unintended or detrimental behaviors, leading to poor experiences for their human partners. In other words, most game AI agents are modeled in a "self-centered" manner. In this paper, we propose a "human-centered" modeling scheme for collaborative agents that aims to enhance the experience of humans. Specifically, we model the experience of humans as the goals they expect to achieve during the task. We expect that agents should learn to enhance the extent to which humans achieve these goals while maintaining agents' original abilities (e.g., winning games). To achieve this, we propose the Reinforcement Learning from Human Gain (RLHG) approach. The RLHG approach introduces a "baseline", which corresponds to the extent to which humans primitively achieve their goals, and encourages agents to learn behaviors that can effectively enhance humans in achieving their goals better. We evaluate the RLHG agent in the popular Multi-player Online Battle Arena (MOBA) game, Honor of Kings, by conducting real-world human-agent tests. Both objective performance and subjective preference results show that the RLHG agent provides participants better gaming experience.

A Systematic Literature Review on Explainability for Machine/Deep Learning-based Software Engineering Research

The remarkable achievements of Artificial Intelligence (AI) algorithms, particularly in Machine Learning (ML) and Deep Learning (DL), have fueled their extensive deployment across multiple sectors, including Software Engineering (SE). However, due to their black-box nature, these promising AI-driven SE models are still far from being deployed in practice. This lack of explainability poses unwanted risks for their applications in critical tasks, such as vulnerability detection, where decision-making transparency is of paramount importance. This paper endeavors to elucidate this interdisciplinary domain by presenting a systematic literature review of approaches that aim to improve the explainability of AI models within the context of SE. The review canvasses work appearing in the most prominent SE & AI conferences and journals, and spans 63 papers across 21 unique SE tasks. Based on three key Research Questions (RQs), we aim to (1) summarize the SE tasks where XAI techniques have shown success to date; (2) classify and analyze different XAI techniques; and (3) investigate existing evaluation approaches. Based on our findings, we identified a set of challenges remaining to be addressed in existing studies, together with a roadmap highlighting potential opportunities we deemed appropriate and important for future work.

Inducing High Energy-Latency of Large Vision-Language Models with Verbose Images

Large vision-language models (VLMs) such as GPT-4 have achieved exceptional performance across various multi-modal tasks. However, the deployment of VLMs necessitates substantial energy consumption and computational resources. Once attackers maliciously induce high energy consumption and latency time (energy-latency cost) during inference of VLMs, it will exhaust computational resources. In this paper, we explore this attack surface about availability of VLMs and aim to induce high energy-latency cost during inference of VLMs. We find that high energy-latency cost during inference of VLMs can be manipulated by maximizing the length of generated sequences. To this end, we propose verbose images, with the goal of crafting an imperceptible perturbation to induce VLMs to generate long sentences during inference. Concretely, we design three loss objectives. First, a loss is proposed to delay the occurrence of end-of-sequence (EOS) token, where EOS token is a signal for VLMs to stop generating further tokens. Moreover, an uncertainty loss and a token diversity loss are proposed to increase the uncertainty over each generated token and the diversity among all tokens of the whole generated sequence, respectively, which can break output dependency at token-level and sequence-level. Furthermore, a temporal weight adjustment algorithm is proposed, which can effectively balance these losses. Extensive experiments demonstrate that our verbose images can increase the length of generated sequences by 7.87 times and 8.56 times compared to original images on MS-COCO and ImageNet datasets, which presents potential challenges for various applications. Our code is available at https://github.com/KuofengGao/Verbose_Images.

The Radiation Oncology NLP Database

We present the Radiation Oncology NLP Database (ROND), the first dedicated Natural Language Processing (NLP) dataset for radiation oncology, an important medical specialty that has received limited attention from the NLP community in the past. With the advent of Artificial General Intelligence (AGI), there is an increasing need for specialized datasets and benchmarks to facilitate research and development. ROND is specifically designed to address this gap in the domain of radiation oncology, a field that offers many opportunities for NLP exploration. It encompasses various NLP tasks including Logic Reasoning, Text Classification, Named Entity Recognition (NER), Question Answering (QA), Text Summarization, and Patient-Clinician Conversations, each with a distinct focus on radiation oncology concepts and application cases. In addition, we have developed an instruction-tuning dataset consisting of over 20k instruction pairs (based on ROND) and trained a large language model, CancerChat. This serves to demonstrate the potential of instruction-tuning large language models within a highly-specialized medical domain. The evaluation results in this study could serve as baseline results for future research. ROND aims to stimulate advancements in radiation oncology and clinical NLP by offering a platform for testing and improving algorithms and models in a domain-specific context. The ROND dataset is a joint effort of multiple U.S. health institutions. The data is available at https://github.com/zl-liu/Radiation-Oncology-NLP-Database.

LUPET: Incorporating Hierarchical Information Path into Multilingual ASR

Many factors have separately shown their effectiveness on improving multilingual ASR. They include language identity (LID) and phoneme information, language-specific processing modules and cross-lingual self-supervised speech representation, etc. However, few studies work on synergistically combining them to contribute a unified solution, which still remains an open question. To this end, a novel view to incorporate hierarchical information path LUPET into multilingual ASR is proposed. The LUPET is a path encoding multiple information in different granularity from shallow to deep encoder layers. Early information in this path is beneficial for deriving later occurred information. Specifically, the input goes from LID prediction to acoustic unit discovery followed by phoneme sharing, and then dynamically routed by mixture-of-expert for final token recognition. Experiments on 10 languages of Common Voice examined the superior performance of LUPET. Importantly, LUPET significantly boosts the recognition on high-resource languages, thus mitigating the compromised phenomenon towards low-resource languages in a multilingual setting.

Benchmarking the CoW with the TopCoW Challenge: Topology-Aware Anatomical Segmentation of the Circle of Willis for CTA and MRA

The Circle of Willis (CoW) is an important network of arteries connecting major circulations of the brain. Its vascular architecture is believed to affect the risk, severity, and clinical outcome of serious neuro-vascular diseases. However, characterizing the highly variable CoW anatomy is still a manual and time-consuming expert task. The CoW is usually imaged by two angiographic imaging modalities, magnetic resonance angiography (MRA) and computed tomography angiography (CTA), but there exist limited public datasets with annotations on CoW anatomy, especially for CTA. Therefore we organized the TopCoW Challenge in 2023 with the release of an annotated CoW dataset and invited submissions worldwide for the CoW segmentation task, which attracted over 140 registered participants from four continents. TopCoW dataset was the first public dataset with voxel-level annotations for CoW's 13 vessel components, made possible by virtual-reality (VR) technology. It was also the first dataset with paired MRA and CTA from the same patients. TopCoW challenge aimed to tackle the CoW characterization problem as a multiclass anatomical segmentation task with an emphasis on topological metrics. The top performing teams managed to segment many CoW components to Dice scores around 90%, but with lower scores for communicating arteries and rare variants. There were also topological mistakes for predictions with high Dice scores. Additional topological analysis revealed further areas for improvement in detecting certain CoW components and matching CoW variant's topology accurately. TopCoW represented a first attempt at benchmarking the CoW anatomical segmentation task for MRA and CTA, both morphologically and topologically.

Experiential Co-Learning of Software-Developing Agents

Recent advancements in large language models (LLMs) have brought significant changes to various domains, especially through LLM-driven autonomous agents. These agents are now capable of collaborating seamlessly, splitting tasks and enhancing accuracy, thus minimizing the need for human involvement. However, these agents often approach a diverse range of tasks in isolation, without benefiting from past experiences. This isolation can lead to repeated mistakes and inefficient trials in task solving. To this end, this paper introduces Experiential Co-Learning, a novel framework in which instructor and assistant agents gather shortcut-oriented experiences from their historical trajectories and use these past experiences for mutual reasoning. This paradigm, enriched with previous experiences, equips agents to more effectively address unseen tasks.

What Makes Good Data for Alignment? A Comprehensive Study of Automatic Data Selection in Instruction Tuning

Instruction tuning is a standard technique employed to align large language models to end tasks and user preferences after the initial pretraining phase. Recent research indicates the critical role of data engineering in instruction tuning -- when appropriately selected, only limited data is necessary to achieve superior performance. However, we still lack a principled understanding of what makes good instruction tuning data for alignment, and how we should select data automatically and effectively. In this work, we delve deeply into automatic data selection strategies for alignment. We start with controlled studies to measure data across three dimensions: complexity, quality, and diversity, along which we examine existing methods and introduce novel techniques for enhanced data measurement. Subsequently, we propose a simple strategy to select data samples based on the measurement. We present deita (short for Data-Efficient Instruction Tuning for Alignment), a series of models fine-tuned from LLaMA and Mistral models using data samples automatically selected with our proposed approach. Empirically, deita performs better or on par with the state-of-the-art open-source alignment models with only 6K SFT training data samples -- over 10x less than the data used in the baselines. When further trained with direct preference optimization (DPO), deita-Mistral-7B + DPO trained with 6K SFT and 10K DPO samples achieve 7.55 MT-Bench and 90.06% AlpacaEval scores. We anticipate this work to provide tools on automatic data selection, facilitating data-efficient alignment. We release our models as well as the selected datasets for future researches to effectively align models more efficiently.