CoGANPPIS: Coevolution-enhanced Global Attention Neural Network for Protein-Protein Interaction Site Prediction

Protein-protein interactions are essential in biochemical processes. Accurate prediction of the protein-protein interaction sites (PPIs) deepens our understanding of biological mechanism and is crucial for new drug design. However, conventional experimental methods for PPIs prediction are costly and time-consuming so that many computational approaches, especially ML-based methods, have been developed recently. Although these approaches have achieved gratifying results, there are still two limitations: (1) Most models have excavated some useful input features, but failed to take coevolutionary features into account, which could provide clues for inter-residue relationships; (2) The attention-based models only allocate attention weights for neighboring residues, instead of doing it globally, neglecting that some residues being far away from the target residues might also matter. We propose a coevolution-enhanced global attention neural network, a sequence-based deep learning model for PPIs prediction, called CoGANPPIS. It utilizes three layers in parallel for feature extraction: (1) Local-level representation aggregation layer, which aggregates the neighboring residues' features; (2) Global-level representation learning layer, which employs a novel coevolution-enhanced global attention mechanism to allocate attention weights to all the residues on the same protein sequences; (3) Coevolutionary information learning layer, which applies CNN & pooling to coevolutionary information to obtain the coevolutionary profile representation. Then, the three outputs are concatenated and passed into several fully connected layers for the final prediction. Application on two benchmark datasets demonstrated a state-of-the-art performance of our model. The source code is publicly available at https://github.com/Slam1423/CoGANPPIS_source_code

Business Process Text Sketch Automation Generation Using Large Language Model

Business Process Management (BPM) is gaining increasing attention as it has the potential to cut costs while boosting output and quality. Business process document generation is a crucial stage in BPM. However, due to a shortage of datasets, data-driven deep learning techniques struggle to deliver the expected results. We propose an approach to transform Conditional Process Trees (CPTs) into Business Process Text Sketches (BPTSs) using Large Language Models (LLMs). The traditional prompting approach (Few-shot In-Context Learning) tries to get the correct answer in one go, and it can find the pattern of transforming simple CPTs into BPTSs, but for close-domain and CPTs with complex hierarchy, the traditional prompts perform weakly and with low correctness. We suggest using this technique to break down a difficult CPT into a number of basic CPTs and then solve each one in turn, drawing inspiration from the divide-and-conquer strategy. We chose 100 process trees with depths ranging from 2 to 5 at random, as well as CPTs with many nodes, many degrees of selection, and cyclic nesting. Experiments show that our method can achieve a correct rate of 93.42%, which is 45.17% better than traditional prompting methods. Our proposed method provides a solution for business process document generation in the absence of datasets, and secondly, it becomes potentially possible to provide a large number of datasets for the process model extraction (PME) domain.Comment: 10 pages, 7 figure

Bias-Aware Design for Informed Decisions: Raising Awareness of Self-Selection Bias in User Ratings and Reviews

People often take user ratings and reviews into consideration when shopping for products or services online. However, such user-generated data contains self-selection bias that could affect people decisions and it is hard to resolve this issue completely by algorithms. In this work, we propose to raise the awareness of the self-selection bias by making three types of information concerning user ratings and reviews transparent. We distill these three pieces of information (reviewers experience, the extremity of emotion, and reported aspects) from the definition of self-selection bias and exploration of related literature. We further conduct an online survey to assess the perceptions of the usefulness of such information and identify the exact facets people care about in their decision process. Then, we propose a visual design to make such details behind user reviews transparent and integrate the design into an experimental website for evaluation. The results of a between-subjects study demonstrate that our bias-aware design significantly increases the awareness of bias and their satisfaction with decision-making. We further offer a series of design implications for improving information transparency and awareness of bias in user-generated content

Effect of aramid core-spun yarn on impact resistance of aramid/epoxy composite

Introduction: The surface of aramid filament is smooth, which is a great defect for impact resistance and composite molding of aramid/epoxy composite. In this study, a new type of yarn—aramid core-spun yarn is introduced to the fabrication of compositematerials. It increases the friction among yarns and optimizes the performance of yarns.Methods: To verify the improvement of yarn in the composite material, the hand lay-up process is used, and the first layer and the fourth layer are replaced by core-spun yarns in a four-layer composite configuration.Results and Discussion: The energy absorption, and the damage of the impacted surface and the back surface are evaluated through the drop weight impact test. The yarn pull-out test can reflect the internal friction of fabric. The results show that the average energy absorption of new yarn in the first layer is 10 J cm2/g more than that in the fourth layer at a 90°/45°/-45°/0° configuration after the normalization, but the conclusion is contrary when the structure is -45°/0°/90°/45°. Under the structure of 90°/45°/-45°/0°, the damaged area of the fabric is larger when the aramid core-spun yarn is laid on the first layer, while a contrary result can be found for the structure of -45°/0°/90°/45°. The fundamental research will provide design ideas and supports for aramid composite

Blockchain systems, technologies and applications: a methodology perspective

In the past decade, blockchain has shown a promising vision to build trust without any powerful third party in a secure, decentralized and scalable manner. However, due to the wide application and future development from cryptocurrency to the Internet of things, blockchain is an extremely complex system enabling integration with mathematics, computer science, communication and network engineering, etc. By revealing the intrinsic relationship between blockchain and communication, networking and computing from a methodological perspective, it provided a view to the challenge that engineers, experts and researchers hardly fully understand the blockchain process in a systematic view from top to bottom. In this article we first introduce how blockchain works, the research activities and challenges, and illustrate the roadmap involving the classic methodologies with typical blockchain use cases and topics. Second, in blockchain systems, how to adopt stochastic process, game theory, optimization theory, and machine learning to study the blockchain running processes and design the blockchain protocols/algorithms are discussed in details. Moreover, the advantages and limitations using these methods are also summarized as the guide of future work to be further considered. Finally, some remaining problems from technical, commercial and political views are discussed as the open issues. The main findings of this article will provide a survey from a methodological perspective to study theoretical model for blockchain fundamentals understanding, design network service for blockchain-based mechanisms and algorithms, as well as apply blockchain for the Internet of things, etc