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AutoFE-Pointer: Auto-weighted feature extractor based on pointer network for DNA methylation prediction

International Journal of Biological Macromolecules 2025年 311卷 143668页

作者： Feng, Xin Xin, Ruihao Wu, Jiezhang Zheng, Jiaxin Wang, Chenyan Yu, Cuinan School of Science Jilin Institute of Chemical Technology Jilin130000 China State Key Laboratory of Inorganic Synthesis and Preparative Chemistry College of Chemistry Jilin University Changchun130012 China College of Information and Control Engineering Jilin Institute of Chemical Technology Jilin130000 China College of Computer Science and Technology Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education Jilin University Changchun130012 China Civil Aviation General Hospital Beijing100123 China School of Engineering Westlake University Zhejiang Hangzhou310030 China Hunan Bojii Life Technology Co. Ltd. Hunan Province Changsha410000 China

DNA methylation is a critical epigenetic modification that plays a central role in gene regulation, cellular differentiation, and the development of various diseases, including cancers. Aberrant methylation patterns have emerged as both biomarkers and mechanistic drivers in pathogenesis, underscoring the urgent need for precise and efficient predictive tools. Although some deep learning techniques have advanced methylation prediction, most existing models are trained independently on single-species datasets. This species-specific approach limits efficiency because each model can only handle one dataset at a time, often at the expense of predictive performance. Additionally, the state-of-the-art deep learning models tend to have enormous parameter counts and computational overhead, making them impractical for integration into local offline software applications. To overcome these challenges, we propose AutoFE-Pointer, a lightweight and novel framework that harnesses an improved softened pointer network to dynamically extract and weight features from diverse DNA sequences. AutoFE-Pointer is designed to simultaneously process 17 different benchmark datasets spanning multiple species, achieving superior performance compared to models that are trained individually on single-species data. In doing so, it not only offers state-of-the-art predictive accuracy and robust cross-species generalization but also significantly reduces computational demands, facilitating its deployment in local offline environments. This breakthrough represents a significant advancement in the field of epigenetic modeling and computational biology. © 2025

关键词： Enterprise software

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knowledge Compilation Methods Based on the Clausal Relevance and Extension Rule

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Chinese Journal of Electronics 2018年第5期27卷 1037-1042页

作者： NIU Dangdang LIU Lei LYU Shuai College of Computer Science and Technology Jilin University Key Laboratory of Symbolic Computation and Knowledge Engineering (Jilin University) Ministry of Education

We introduce the concepts of Relevancematrix(RM) and Relevance-set(RS). And we construct the association between RM and the knowledge compilation(KC) methods based on Extension rule(ER). Based on the basic parameters of RS and the relationship between RM and the KC methods based on ER, we design two efficient heuristics, called M2S(maximum sum of elements in RS and sum of literals in RS) and MNE(minimum number of maximum terms not extended by RS). Both of above heuristics intend to find the minimum set of maximum terms which cannot be extended by RS. Furthermore,we apply M2S and MNE on KCER. M2S KCER(KCER with M2S) and MNE KCER(KCER with MNE) are designed and implemented based on M2S and MNE, respectively. Experimentally, for the SAT instances with random lengths of clauses, M2S KCER and MNE KCER can improve the efficiency and quality of KCER sharply, and they are two best KC algorithms of EPCCL(each pair contains complementary literal) theory in all KC algorithms based on KCER.

关键词： Extension rule knowledge compilation Clausal relevance Heuristic strategy

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Model-based diagnosis of incomplete discrete-event system with rough set theory

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Science China(Information Sciences) 2017年第1期60卷 190-200页

作者： Xuena GENG Dantong OUYANG Yonggang ZHANG Key Laboratory of Symbolic Computation and Knowledge Engineering Ministry of EducationJilin University College of Computer Science and Technology Jilin University

Fault diagnosis of discrete-event system(DES) is important in the preventing of harmful events in the system. In an ideal situation, the system to be diagnosed is assumed to be complete; however, this assumption is rather restrictive. In this paper, a novel approach, which uses rough set theory as a knowledge extraction tool to deal with diagnosis problems of an incomplete model, is investigated. DESs are presented as information tables and decision tables. Based on the incomplete model and observations, an algorithm called Optimizing Incomplete Model is proposed in this paper in order to obtain the repaired model. Furthermore, a necessary and sufficient condition for a system to be diagnosable is given. In ensuring the diagnosability of a system, we also propose an algorithm to minimize the observable events and reduce the cost of sensor selection.

关键词： model-based diagnosis diagnosability discrete-event system finite state machine rough set theory

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Complementary knowledge Compilation Using the Hyper Extension Rule

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Chinese Journal of Electronics 2019年第2期28卷 259-265页

作者： NIU Dangdang LIU Lei LYU Shuai XU Yue College of Computer Science and Technology Jilin University Key Laboratory of Symbolic Computation and Knowledge Engineering Ministry of Education Jilin University

We introduce the concept of Complementary formula(COMF), which is a new and non-equivalent way for knowledge compilation(KC). Based on the Hyper extension rule(HER) which is an expansion of Extension rule(ER), we design a compilation algorithm which can formula compile each Conjunctive normal form(CNF)formula to complementary Fully complementary connected diagram(c-FCCD), named as C2C(CNF formula to cFCCD). Theoretically, c-FCCD is a kind of complementary formulae of the input formulae and can support all queries and partial transformations in KC map. Experimentally,C2C is competitive with the EPCCL compilers KCER,C2E, UKCHER, DKCHER and IKCHER.

关键词： knowledge compilation Extension rule Hyper extension rule Compilation language Each pair contains complementary literals(EPCCL) theory

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Copy-Paste Detection Based on a SIFT Marked Graph Feature Vector

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Chinese Journal of Electronics 2017年第2期26卷 345-350页

作者： LYU Yingda SHEN Xuanjing CHEN Haipeng College of Computer Science and Technology Jilin University Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education Jilin University

To detect copy-paste tampering,an improved SIFT(Scale invariant feature transform)-based algorithm was *** angle is defined and a maximum angle-based marked graph is *** marked graph feature vector is provided to each SIFT key point via discrete polar coordinate *** points are matched to detect the copy-paste tampering *** experimental results show that the proposed algorithm can effectively identify and detect the rotated or scaled copy-paste regions,and in comparison with the methods reported previously,it is resistant to postprocessing,such as blurring,Gaussian white noise and JPEG *** proposed algorithm performs better than the existing algorithm to dealing with scaling transformation.

关键词： Copy-paste tampering Image forensics Marked graph Maximum angle

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Don’t Confuse! Redrawing GUI Navigation Flow in Mobile Apps for Visually Impaired Users

arXiv

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arXiv 2025年

作者： Zhang, Mengxi Liu, Huaxiao Zhou, Yuheng Chen, Chunyang Huang, Pei Zhao, Jian College of Computer Science and Technology Jilin University Changchun130012 China Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education Jilin University Changchun130012 China Department of Computer Science Technical University of Munich Weipertstr.8-10 Heilbronn74076 Germany Department of Computer Science Stanford University California9025 United States Department of Computer Science Changchun University Changchun1340012 China

Mobile applications (apps) are integral to our daily lives, offering diverse services and functionalities. They enable sighted users to access information coherently in an extremely convenient manner. However, it remains unclear if visually impaired users, who rely solely on the screen readers (e.g., Talkback) to navigate and access app information, can do so in the correct and reasonable order. This may result in significant information bias and operational errors. Furthermore, in our preliminary exploration, we explained and clarified that the navigation sequence-related issues encountered by visually impaired users could be categorized into two types: unintuitive navigation sequence and unapparent focus switching. Considering these issues, in this work, we proposed a method named RGNF (Re-draw GUI Navigation Flow). It aimed to enhance the understandability and coherence of accessing the content of each component within the Graphical User Interface (GUI), together with assisting developers in creating well-designed GUI navigation flow (GNF). This method was inspired by the characteristics identified in our preliminary study, where visually impaired users expected navigation to be associated with close position and similar shape of GUI components that were read consecutively. Thus, our method relied on the principles derived from the Gestalt psychological model, aiming to group GUI components into different regions according to the laws of proximity and similarity, thereby redrawing the GNFs. To evaluate the effectiveness of our method, we calculated sequence similarity values before and after redrawing the GNF, and further employed the tools proposed by Alotaibi et al. to measure the reachability of GUI components. Our results demonstrated a substantial improvement in similarity (0.921) compared to the baseline (0.624), together with the reachability (90.31%) compared to the baseline GNF (74.35%). Furthermore, a qualitative user study revealed that our method had

关键词： Graphical user interfaces

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Aerial Reliable Collaborative Communications for Terrestrial Mobile Users via Evolutionary Multi-Objective Deep Reinforcement Learning

arXiv

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arXiv 2025年

作者： Sun, Geng Xiao, Jian Li, Jiahui Wang, Jiacheng Kang, Jiawen Niyato, Dusit Mao, Shiwen College of Computer Science and Technology Jilin University Changchun130012 China Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education Jilin University Changchun130012 China affiliated with the College of Computing and Data Science Nanyang Technological University Singapore639798 Singapore School of Computer Science and Engineering Nanyang Technological University Singapore639798 Singapore School of Automation Guangdong University of Technology Guangzhou510641 China Department of Electrical and Computer Engineering Auburn University AuburnAL36849-5201 United States

Unmanned aerial vehicles (UAVs) have emerged as the potential aerial base stations (BSs) to improve terrestrial communications. However, the limited onboard energy and antenna power of a UAV restrict its communication range and transmission capability. To address these limitations, this work employs collaborative beamforming through a UAV-enabled virtual antenna array to improve transmission performance from the UAV to terrestrial mobile users, under interference from non-associated BSs and dynamic channel conditions. Specifically, we introduce a memory-based random walk model to more accurately depict the mobility patterns of terrestrial mobile users. Following this, we formulate a multi-objective optimization problem (MOP) focused on maximizing the transmission rate while minimizing the flight energy consumption of the UAV swarm. Given the NP-hard nature of the formulated MOP and the highly dynamic environment, we transform this problem into a multi-objective Markov decision process and propose an improved evolutionary multi-objective reinforcement learning algorithm. Specifically, this algorithm introduces an evolutionary learning approach to obtain the approximate Pareto set for the formulated MOP. Moreover, the algorithm incorporates a long short-term memory network and hyper-sphere-based task selection method to discern the movement patterns of terrestrial mobile users and improve the diversity of the obtained Pareto set. Simulation results demonstrate that the proposed method effectively generates a diverse range of non-dominated policies and outperforms existing methods. Additional simulations demonstrate the scalability and robustness of the proposed CB-based method under different system parameters and various unexpected circumstances. © 2025, CC0.

关键词： Unmanned aerial vehicles (UAV)

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Collaboration and Controversy Among Experts: Rumor Early Detection by Tuning a Comment Generator

arXiv

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arXiv 2025年

作者： Wang, Bing Zhao, Bingrui Li, Ximing Li, Changchun Gao, Wanfu Wang, Shengsheng College of Computer Science and Technology Jilin University Jilin Changchun China Key Laboratory of Symbolic Computation and Knowledge Engineering of the Ministry of Education Jilin University China

Over the past decade, social media platforms have been key in spreading rumors, leading to significant negative impacts. To counter this, the community has developed various Rumor Detection (RD) algorithms to automatically identify them using user comments as evidence. However, these RD methods often fail in the early stages of rumor propagation when only limited user comments are available, leading the community to focus on a more challenging topic named Rumor Early Detection (RED). Typically, existing RED methods learn from limited semantics in early comments. However, our preliminary experiment reveals that the RED models always perform best when the number of training and test comments is consistently extensive. This inspires us to address the RED issue by generating more human-like comments to support this hypothesis. To implement this idea, we tune a comment generator by simulating expert collaboration and controversy and propose a new RED framework named CameRed. Specifically, we integrate a mixture-of-expert structure into a generative language model and present a novel routing network for expert collaboration. Additionally, we synthesize a knowledgeable dataset and design an adversarial learning strategy to align the style of generated comments with real-world comments. We further integrate generated and original comments with a mutual controversy fusion module. Experimental results show that CameRed outperforms state-of-the-art RED baseline models and generation methods, demonstrating its effectiveness. Copyright © 2025, The Authors. All rights reserved.

关键词： Tweets

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Joint Optimization of UAV-Carried IRS for Urban Low Altitude mmWave Communications with Deep Reinforcement Learning

arXiv

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arXiv 2025年

作者： Xie, Wenwen Sun, Geng Liu, Bei Li, Jiahui Wang, Jiacheng Du, Hongyang Niyato, Dusit Kim, Dong In The College of Computer Science and Technology Jilin University Changchun130012 China Key Laboratory of Symbolic Computation and Knowledge Engineering Ministry of Education Jilin University Changchun130012 China The College of Computing and Data Science Nanyang Technological University Singapore639798 Singapore The College of Computing and Data Science Nanyang Technological University Singapore The Department of Electrical and Electronic Engineering The University of Hong Kong 999077 Hong Kong The Department of Electrical and Computer Engineering Sungkyunkwan University Suwon16419 Korea Republic of

Emerging technologies in sixth generation (6G) of wireless communications, such as terahertz communication and ultra-massive multiple-input multiple-output, present promising prospects. Despite the high data rate potential of millimeter wave communications, millimeter wave (mmWave) communications in urban low altitude economy (LAE) environments are constrained by challenges such as signal attenuation and multipath interference. Specially, in urban environments, mmWave communication experiences significant attenuation due to buildings, owing to its short wavelength, which necessitates developing innovative approaches to improve the robustness of such communications in LAE networking. In this paper, we explore the use of an unmanned aerial vehicle (UAV)-carried intelligent reflecting surface (IRS) to support low altitude mmWave communication. Specifically, we consider a typical urban low altitude communication scenario where a UAV-carried IRS establishes a line-of-sight (LoS) channel between the mobile users and a source user (SU) despite the presence of obstacles. Subsequently, we formulate an optimization problem aimed at maximizing the transmission rates and minimizing the energy consumption of the UAV by jointly optimizing phase shifts of the IRS and UAV trajectory. Given the non-convex nature of the problem and its high dynamics, we propose a deep reinforcement learning-based approach incorporating neural episodic control, long short-term memory, and an IRS phase shift control method to enhance the stability and accelerate the convergence. Simulation results show that the proposed algorithm effectively resolves the problem and surpasses other benchmark algorithms in various performances. Copyright © 2025, The Authors. All rights reserved.

关键词： Deep reinforcement learning

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Aerial Secure Collaborative Communications under Eavesdropper Collusion in Low-altitude Economy: A Generative Swarm Intelligent Approach

arXiv

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arXiv 2025年

作者： Li, Jiahui Sun, Geng Wu, Qingqing Liang, Shuang Wang, Jiacheng Niyato, Dusit Kim, Dong In College of Computer Science and Technology Jilin University Changchun130012 China Key Laboratory of Symbolic Computation and Knowledge Engineering Ministry of Education Jilin University Changchun130012 China College of Computing and Data Science Nanyang Technological University Singapore639798 Singapore Department of Electronic Engineering Shanghai Jiao Tong University Shanghai200240 China School of Information Science and Technology Northeast Normal University Changchun130117 China Department of Electrical and Computer Engineering Sungkyunkwan University Suwon16419 Korea Republic of

The rapid development of the low-altitude economy (LAE) has significantly increased the utilization of autonomous aerial vehicles (AAVs) in various applications, necessitating efficient and secure communication methods among AAV swarms. In this work, we aim to introduce distributed collaborative beamforming (DCB) into AAV swarms and handle the eavesdropper collusion by controlling the corresponding signal distributions. Specifically, we consider a two-way DCB-enabled aerial communication between two AAV swarms and construct these swarms as two AAV virtual antenna arrays. Then, we minimize the two-way known secrecy capacity and maximum sidelobe level to avoid information leakage from the known and unknown eavesdroppers, respectively. Simultaneously, we also minimize the energy consumption of AAVs when constructing virtual antenna arrays. Due to the conflicting relationships between secure performance and energy efficiency, we consider these objectives by formulating a multi-objective optimization problem, which is NP-hard and with a large number of decision variables. Accordingly, we design a novel generative swarm intelligence (GenSI) framework to solve the problem with less overhead, which contains a conditional variational autoencoder (CVAE)-based generative method and a proposed powerful swarm intelligence algorithm. In this framework, CVAE can collect expert solutions obtained by the swarm intelligence algorithm in other environment states to explore characteristics and patterns, thereby directly generating high-quality initial solutions in new environment factors for the swarm intelligence algorithm to search solution space efficiently. Simulation results show that the proposed swarm intelligence algorithm outperforms other state-of-the-art baseline algorithms, and the GenSI can achieve similar optimization results by using far fewer iterations than the ordinary swarm intelligence algorithm. Experimental tests demonstrate that introducing the CVAE mechanism ach

关键词： Multiobjective optimization

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