Publications

(2024). NP2L: Negative Pseudo Partial Labels Extraction for Graph Neural Networks. arxiv.

(2024). Progressive enhancement and restoration for mural images under low-light and defected conditions based on multi-receptive field strategy. arxiv.

(2024). The identification and analysis of meristematic mutations within the apple tree thatdeveloped the RubyMac sport mutation. bioarxiv.

Hequan Sun, Sergio Tusso, Craig I. Dent, Manish Goel, Raúl Y. Wijfjes, Lisa C. Baus, Xiao Dong, José A. Campoy, Ana Kurdadze, Birgit Walkemeier, Christine Sänger, Bruno Huettel, Ronald C. B. Hutten, Herman J. Van Eck, Klaus J. Dehmer, Korbinian Schneeberger (2025). The phased pan-genome of tetraploid European potato. Nature.

Source Document DOI

Xiameng Wei, Binbin Fan, Ying Wang, Yanxiang Feng, Laiyi Fu (2025). Progressive enhancement and restoration for mural images under low-light and defective conditions based on multi-receptive field strategy.. npj Heritage Science.

Source Document DOI

Laiyi Fu, Shunkang Ling, Danyang Wu, Mengzhen Kang, Fei-Yue Wang, Hequan Sun (2025). Parallel Seeds: From Foundation Models to Foundation Intelligence for Agricultural Sustainability.. IEEE/CAA Journal of Automatica Sinica.

Source Document DOI

Hongkai Du, Haozhou Li, Qinke Peng, Laiyi Fu (2024). User Linguistic Style Awareness and Interest-Driven Conversational Recommender Systems.. BEST PAPER AWARD! 2024 IEEE 4th International Conference on Digital Twins and Parallel Intelligence (DTPI).

Source Document DOI

Laiyi Fu, Yanxin Xie, Shunkang Ling, Ying Wang, Binzhong Wang, Hejun Du, Qinke Peng, Hequan Sun (2024). findGSEP: estimating genome size of polyploid species using k-mer frequencies. Bioinformatics.

Code Source Document DOI

Laiyi Fu, Zhiyuan Yao, Yangyi Zhou, Qinke Peng, Hongqiang Lyu (2024). ACLNDA: an asymmetric graph contrastive learning framework for predicting noncoding RNA–disease associations in heterogeneous graphs.. Briefings in Bioinformatics.

Code Source Document DOI

Goel M, Campoy JA, Krause K, Baus LC, Sahu A, Sun H, Walkemeier B, Marek M, Beaudry R, Ruiz D, Huettel B, Schneeberger K. (2024). The vast majority of somatic mutations in plants are layer-specific.. Genome Biol.

DOI

Danyang Wu, Penglei Wang, Junjie Liang, Jitao Lu, Jin Xu*, Rong Wang, Feiping Nie (2024). Adaptive Local Modularity Learning for Efficient Multilayer Graph Clustering. IEEE Transactions on Signal Processing.

Danyang Wu(1), Zhenkun Yang(1), Jitao Lu, Xiangmin Xu, Feiping Nie (2024). EBMGC-GNF: Efficient Balanced Multi-view Graph Clustering via Good Neighbor Fusion. IEEE Transactions on Pattern Analysis and Machine Intelligence.

Danyang Wu, Xinjie Shen, Jitao Lu, Jin Xu, Feiping Nie* (2024). Simple Multigraph Convolution Networks. In WWW Conference.

Yan Yan, Yuhong Guo (2024). Federated Partial Label Learning with Local-Adaptive Augmentation and Regularization. In AAAI Conference.

Danyang Wu, Feiping Nie*, Jitao Lu, Rong Wang, Xuelong Li (2023). Effective Clustering via Structured Graph Learning. IEEE Transactions on Knowledge and Data Engineering.

Jinyang Wu, Zhiwei Ning, Yidong Ding, Ying Wang, Qinke Peng, Laiyi Fu* (2023). KGETCDA: an efficient representation learning framework based on knowledge graph encoder from transformer for predicting circRNA-disease associations. Briefings in Bioinformatics.

Yan Yan, Yuhong Guo (2023). Mutual Partial Label Learning with Competitive Label Noise. In ICLR Conference.

Yan Yan, Yuhong Guo (2023). Partial Label Unsupervised Domain Adaptation with Class-Prototype Alignment. In ICLR Conference.

Danyang Wu, Feiping Nie*, Xia Dong, Rong Wang, Xuelong Li (2022). Parameter-free Consensus Embedding Learning for Multiview Graph-based Clustering. IEEE Transactions on Neural Networks and Learning Systems.

Yingxin Cao(1), Laiyi Fu(1), Jie Wu, Qinke Peng, Qing Nie, Jing Zhang*, Xiaohui Xie* (2022). Integrated analysis of multimodal single-cell data with structural similarity. Nucleic Acids Research.

Danyang Wu, Xia Dong, Jianfu Cao, Rong Wang, Feiping Nie*, Xuelong Li (2022). Bidirectional Probabilistic Subspaces Approximation for Multiview Clustering. IEEE Transactions on Neural Networks and Learning Systems.

Danyang Wu(1), Jitao Lu(1), Feiping Nie*, Rong Wang, Yuan Yuan (2022). EMGC2F: Efficient Multi-view Graph Clustering with Comprehensive Fusion. In IJCAI Conference.

Hequan Sun(1), Wen-Biao Jiao(1), Kristin Krause, José A. Campoy, Manish Goel, Kat Folz-Donahue, Christian Kukat, Bruno Huettel, Korbinian Schneeberger* (2022). Chromosome-scale and haplotype-resolved genome assembly of a tetraploid potato cultivar. Nature Genetics.

Laiyi Fu(1), Yingxin Cao(1), Jie Wu, Qinke Peng, Qing Nie, Xiaohui Xie* (2022). UFold: fast and accurate RNA secondary structure prediction with deep learning. Nucleic Acids Research.

Feiping Nie, Danyang Wu, Rong Wang, Xuelong Li (2022). Truncated Robust Principle Component Analysis with a General Optimization Framework. IEEE Transactions on Pattern Analysis and Machine Intelligence.

Yan Yan, Yuhong Guo (2021). Adversarial Partial Multi-Label Learning with Label Disambiguation. In AAAI Conference.

Yan Yan, Yuhong Guo (2021). Multi-level Generative Models for Partial Label Learning with Non-random Label Noise. In IJCAI Conference.

Danyang Wu, Jin Xu*, Xia Dong, Meng Liao, Rong Wang, Feiping Nie*, Xuelong Li (2021). GSPL: A Succinct Kernel Model for Group-Sparse Projections Learning of Multiview Data. In IJCAI Conference.

José A. Campoy(1), Hequan Sun(1), Manish Goel, Wen-Biao Jiao, Kat Folz-Donahue, Nan Wang, Manuel Rubio, Chang Liu, Christian Kukat, David Ruiz, Bruno Huettel, Korbinian Schneeberger* (2020). Gamete binning: chromosome-level and haplotype-resolved genome assembly enabled by high-throughput single-cell sequencing of gamete genomes. Genome Biology.

Laiyi Fu, Lihua Zhang, Emmanuel Dollinger, Qinke Peng, Qing Nie*, Xiaohui Xie* (2020). Predicting transcription factor binding in single cells through deep learning. Science Adavances.

Yan Yan, Yuhong Guo (2020). Partial Label Learning with Batch Label Correction. In AAAI Conference.

Hequan Sun(1), Beth A. Rowan(1), Pádraic J. Flood, Ronny Brandt, Janina Fuss, Angela M. Hancock, Richard W. Michelmore, Bruno Huettel, Korbinian Schneeberger* (2019). Linked-read sequencing of gametes allows efficient genome-wide analysis of meiotic recombination. Nature Communacations.