Materials
SCENE: Self-Labeled Counterfactuals for Extrapolating to Negative Examples
Fu, Deqing, Godbole, Ameya, Jia, Robin
Detecting negatives (such as non-entailment relationships, unanswerable questions, and false claims) is an important and challenging aspect of many natural language understanding tasks. Though manually collecting challenging negative examples can help models detect them, it is both costly and domain-specific. In this work, we propose Self-labeled Counterfactuals for Extrapolating to Negative Examples (SCENE), an automatic method for synthesizing training data that greatly improves models' ability to detect challenging negative examples. In contrast with standard data augmentation, which synthesizes new examples for existing labels, SCENE can synthesize negative examples zero-shot from only positive ones. Given a positive example, SCENE perturbs it with a mask infilling model, then determines whether the resulting example is negative based on a self-training heuristic. With access to only answerable training examples, SCENE can close 69.6% of the performance gap on SQuAD 2.0, a dataset where half of the evaluation examples are unanswerable, compared to a model trained on SQuAD 2.0. Our method also extends to boolean question answering and recognizing textual entailment, and improves generalization from SQuAD to ACE-whQA, an out-of-domain extractive QA benchmark.
ChemDFM: Dialogue Foundation Model for Chemistry
Zhao, Zihan, Ma, Da, Chen, Lu, Sun, Liangtai, Li, Zihao, Xu, Hongshen, Zhu, Zichen, Zhu, Su, Fan, Shuai, Shen, Guodong, Chen, Xin, Yu, Kai
Large language models (LLMs) have established great success in the general domain of natural language processing. Their emerging task generalization and free-form dialogue capabilities can greatly help to design Chemical General Intelligence (CGI) to assist real-world research in chemistry. However, the existence of specialized language and knowledge in the field of chemistry, such as the highly informative SMILES notation, hinders the performance of general-domain LLMs in chemistry. To this end, we develop ChemDFM, the first LLM towards CGI. ChemDFM-13B is trained on 34B tokens from chemical literature, textbooks, and instructions as well as various data from the general domain. Therefore, it can store, understand, and reason over chemical knowledge and languages while still possessing advanced free-form language comprehension capabilities. Extensive quantitative evaluation shows that ChemDFM can significantly outperform the representative open-sourced LLMs. Moreover, ChemDFM can also surpass GPT-4 on a great portion of chemical tasks, despite the significant size difference. Further qualitative evaluations demonstrate the efficiency and effectiveness of ChemDFM in real-world research scenarios. We will open-source the ChemDFM model soon.
Scientific Large Language Models: A Survey on Biological & Chemical Domains
Zhang, Qiang, Ding, Keyang, Lyv, Tianwen, Wang, Xinda, Yin, Qingyu, Zhang, Yiwen, Yu, Jing, Wang, Yuhao, Li, Xiaotong, Xiang, Zhuoyi, Zhuang, Xiang, Wang, Zeyuan, Qin, Ming, Zhang, Mengyao, Zhang, Jinlu, Cui, Jiyu, Xu, Renjun, Chen, Hongyang, Fan, Xiaohui, Xing, Huabin, Chen, Huajun
Large Language Models (LLMs) have emerged as a transformative power in enhancing natural language comprehension, representing a significant stride toward artificial general intelligence. The application of LLMs extends beyond conventional linguistic boundaries, encompassing specialized linguistic systems developed within various scientific disciplines. This growing interest has led to the advent of scientific LLMs, a novel subclass specifically engineered for facilitating scientific discovery. As a burgeoning area in the community of AI for Science, scientific LLMs warrant comprehensive exploration. However, a systematic and up-to-date survey introducing them is currently lacking. In this paper, we endeavor to methodically delineate the concept of "scientific language", whilst providing a thorough review of the latest advancements in scientific LLMs. Given the expansive realm of scientific disciplines, our analysis adopts a focused lens, concentrating on the biological and chemical domains. This includes an in-depth examination of LLMs for textual knowledge, small molecules, macromolecular proteins, genomic sequences, and their combinations, analyzing them in terms of model architectures, capabilities, datasets, and evaluation. Finally, we critically examine the prevailing challenges and point out promising research directions along with the advances of LLMs. By offering a comprehensive overview of technical developments in this field, this survey aspires to be an invaluable resource for researchers navigating the intricate landscape of scientific LLMs.
Chem-FINESE: Validating Fine-Grained Few-shot Entity Extraction through Text Reconstruction
Wang, Qingyun, Zhang, Zixuan, Li, Hongxiang, Liu, Xuan, Han, Jiawei, Zhao, Huimin, Ji, Heng
Fine-grained few-shot entity extraction in the chemical domain faces two unique challenges. First, compared with entity extraction tasks in the general domain, sentences from chemical papers usually contain more entities. Moreover, entity extraction models usually have difficulty extracting entities of long-tailed types. In this paper, we propose Chem-FINESE, a novel sequence-to-sequence (seq2seq) based few-shot entity extraction approach, to address these two challenges. Our Chem-FINESE has two components: a seq2seq entity extractor to extract named entities from the input sentence and a seq2seq self-validation module to reconstruct the original input sentence from extracted entities. Inspired by the fact that a good entity extraction system needs to extract entities faithfully, our new self-validation module leverages entity extraction results to reconstruct the original input sentence. Besides, we design a new contrastive loss to reduce excessive copying during the extraction process. Finally, we release ChemNER+, a new fine-grained chemical entity extraction dataset that is annotated by domain experts with the ChemNER schema. Experiments in few-shot settings with both ChemNER+ and CHEMET datasets show that our newly proposed framework has contributed up to 8.26% and 6.84% absolute F1-score gains respectively.
T-Rex: Text-assisted Retrosynthesis Prediction
Liu, Yifeng, Xu, Hanwen, Fang, Tangqi, Xi, Haocheng, Liu, Zixuan, Zhang, Sheng, Poon, Hoifung, Wang, Sheng
As a fundamental task in computational chemistry, retrosynthesis prediction aims to identify a set of reactants to synthesize a target molecule. Existing template-free approaches only consider the graph structures of the target molecule, which often cannot generalize well to rare reaction types and large molecules. Here, we propose T-Rex, a text-assisted retrosynthesis prediction approach that exploits pre-trained text language models, such as ChatGPT, to assist the generation of reactants. T-Rex first exploits ChatGPT to generate a description for the target molecule and rank candidate reaction centers based both the description and the molecular graph. It then re-ranks these candidates by querying the descriptions for each reactants and examines which group of reactants can best synthesize the target molecule. We observed that T-Rex substantially outperformed graph-based state-of-the-art approaches on two datasets, indicating the effectiveness of considering text information. We further found that T-Rex outperformed the variant that only use ChatGPT-based description without the re-ranking step, demonstrate how our framework outperformed a straightforward integration of ChatGPT and graph information. Collectively, we show that text generated by pre-trained language models can substantially improve retrosynthesis prediction, opening up new avenues for exploiting ChatGPT to advance computational chemistry. And the codes can be found at https://github.com/lauyikfung/T-Rex.
Guided Diffusion for Fast Inverse Design of Density-based Mechanical Metamaterials
Yang, Yanyan, Wang, Lili, Zhai, Xiaoya, Chen, Kai, Wu, Wenming, Zhao, Yunkai, Liu, Ligang, Fu, Xiao-Ming
Mechanical metamaterial is a synthetic material that can possess extraordinary physical characteristics, such as abnormal elasticity, stiffness, and stability, by carefully designing its internal structure. To make metamaterials contain delicate local structures with unique mechanical properties, it is a potential method to represent them through high-resolution voxels. However, it brings a substantial computational burden. To this end, this paper proposes a fast inverse design method, whose core is an advanced deep generative AI algorithm, to generate voxel-based mechanical metamaterials. Specifically, we use the self-conditioned diffusion model, capable of generating a microstructure with a resolution of $128^3$ to approach the specified homogenized tensor matrix in just 3 seconds. Accordingly, this rapid reverse design tool facilitates the exploration of extreme metamaterials, the sequence interpolation in metamaterials, and the generation of diverse microstructures for multi-scale design. This flexible and adaptive generative tool is of great value in structural engineering or other mechanical systems and can stimulate more subsequent research.
Machine learning for industrial sensing and control: A survey and practical perspective
Lawrence, Nathan P., Damarla, Seshu Kumar, Kim, Jong Woo, Tulsyan, Aditya, Amjad, Faraz, Wang, Kai, Chachuat, Benoit, Lee, Jong Min, Huang, Biao, Gopaluni, R. Bhushan
With the rise of deep learning, there has been renewed interest within the process industries to utilize data on large-scale nonlinear sensing and control problems. We identify key statistical and machine learning techniques that have seen practical success in the process industries. To do so, we start with hybrid modeling to provide a methodological framework underlying core application areas: soft sensing, process optimization, and control. Soft sensing contains a wealth of industrial applications of statistical and machine learning methods. We quantitatively identify research trends, allowing insight into the most successful techniques in practice. We consider two distinct flavors for data-driven optimization and control: hybrid modeling in conjunction with mathematical programming techniques and reinforcement learning. Throughout these application areas, we discuss their respective industrial requirements and challenges. A common challenge is the interpretability and efficiency of purely data-driven methods. This suggests a need to carefully balance deep learning techniques with domain knowledge. As a result, we highlight ways prior knowledge may be integrated into industrial machine learning applications. The treatment of methods, problems, and applications presented here is poised to inform and inspire practitioners and researchers to develop impactful data-driven sensing, optimization, and control solutions in the process industries.
Causal Relationship Network of Risk Factors Impacting Workday Loss in Underground Coal Mines
Ren, Shangsi, Beeche, Cameron A., Shi, Zhiyi, Garcia, Maria Acevedo, Zychowski, Katherine, Leng, Shuguang, Roghanchi, Pedram, Pu, Jiantao
This study aims to establish the causal relationship network between various factors leading to workday loss in underground coal mines using a novel causal artificial intelligence (AI) method. The analysis utilizes data obtained from the National Institute for Occupational Safety and Health (NIOSH). A total of 101,010 injury records from 3,982 unique underground coal mines spanning the years from 1990 to 2020 were extracted from the NIOSH database. Causal relationships were analyzed and visualized using a novel causal AI method called Grouped Greedy Equivalence Search (GGES). The impact of each variable on workday loss was assessed through intervention do-calculus adjustment (IDA) scores. Model training and validation were performed using the 10-fold cross-validation technique. Performance metrics, including adjacency precision (AP), adjacency recall (AR), arrowhead precision (AHP), and arrowhead recall (AHR), were utilized to evaluate the models. Findings revealed that after 2006, key direct causes of workday loss among mining employees included total mining experience, mean office employees, mean underground employees, county, and total mining experience (years). Total mining experience emerged as the most influential factor, whereas mean employees per mine exhibited the least influence. The analyses emphasized the significant role of total mining experience in determining workday loss. The models achieved optimal performance, with AP, AR, AHP, and AHR values measuring 0.694, 0.653, 0.386, and 0.345, respectively. This study demonstrates the feasibility of utilizing the new GGES method to clarify the causal factors behind the workday loss by analyzing employment demographics and injury records and establish their causal relationship network.
AC-Driven Series Elastic Electrohydraulic Actuator for Stable and Smooth Displacement Output
Xiong, Quan, Zhou, Xuanyi, Li, Dannuo, Yeow, Raye Chen-Hua
Soft electrohydraulic actuators known as HASEL actuators have attracted widespread research interest due to their outstanding dynamic performance and high output power. However, the displacement of electrohydraulic actuators usually declines with time under constant DC voltage, which hampers its prospective application. A mathematical model is firstly established to not only explain the decrease in displacement under DC voltage but also predict the relatively stable displacement with oscillation under AC square wave voltage. The mathematical model is validated since the actual displacement confirms the trend observed by our model. To smooth the displacement oscillation introduced by AC voltage, a serial elastic component is incorporated to form a SE-HASEL actuator. A feedback control with a proportion-integration algorithm enables the SE-HASEL actuator to eliminate the obstinate displacement hysteresis. Our results revealed that, through our methodology, the SE-HASEL actuator can give stable and smooth displacement and is capable of absorbing external impact disturbance simultaneously. A rotary joint based on the SE-HASEL actuator is developed to reflect its possibility to generate a common rotary motion for wide robotic applications. More importantly, this paper also proposes a highly accurate needle biopsy robot that can be utilized in MRI-guide surgical procedures. Overall, we have achieved AC-driven series elastic electrohydraulic actuators that can exhibit stable and smooth displacement output.
Precise Robotic Weed Spot-Spraying for Reduced Herbicide Usage and Improved Environmental Outcomes -- A Real-World Case Study
Azghadi, Mostafa Rahimi, Olsen, Alex, Wood, Jake, Saleh, Alzayat, Calvert, Brendan, Granshaw, Terry, Fillols, Emilie, Philippa, Bronson
Precise robotic weed control plays an essential role in precision agriculture. It can help significantly reduce the environmental impact of herbicides while reducing weed management costs for farmers. In this paper, we demonstrate that a custom-designed robotic spot spraying tool based on computer vision and deep learning can significantly reduce herbicide usage on sugarcane farms. We present results from field trials that compare robotic spot spraying against industry-standard broadcast spraying, by measuring the weed control efficacy, the reduction in herbicide usage, and the water quality improvements in irrigation runoff. The average results across 25 hectares of field trials show that spot spraying on sugarcane farms is 97% as effective as broadcast spraying and reduces herbicide usage by 35%, proportionally to the weed density. For specific trial strips with lower weed pressure, spot spraying reduced herbicide usage by up to 65%. Water quality measurements of irrigation-induced runoff, three to six days after spraying, showed reductions in the mean concentration and mean load of herbicides of 39% and 54%, respectively, compared to broadcast spraying. These promising results reveal the capability of spot spraying technology to reduce herbicide usage on sugarcane farms without impacting weed control and potentially providing sustained water quality benefits.