SPLiNet: Lightweight prediction of protein-RNA interaction sites by integrating a structure-aware protein language model with a dual-branch network.

Zhidong Xue

Hongyang Ye Changrong Zheng Lei Wang Yan Wang Zhidong Xue SPLiNet: Lightweight prediction of protein-RNA interaction sites by integrating a structure-aware protein language model with a dual-branch network. 2026 109130 124 Comput. Biol. Chem. https://doi.org/10.1016/j.compbiolchem.2026.109130 db/journals/candc/candc124.html#YeZWWX26 streams/journals/candc

Chunxia Ge Xiaosheng Dong Zhidong Xue High-density DNA storage for vector images: hybrid encoding with error correction and contour-driven retrieval. 2026 March 105-114 8 J. Membr. Comput. 1 https://doi.org/10.1007/s41965-025-00202-2 db/journals/jmemcom/jmemcom8.html#GeDX26 streams/journals/jmemcom

Lei Wang 0205 Zilu Zeng Yan Wang Zhidong Xue ProtSSSD: A Novel Approach for Intrinsically Disordered Protein Region Prediction Using Protein Language Model. 1860-1863 2025 BIBM https://doi.org/10.1109/BIBM66473.2025.11356879 conf/bibm/2025 db/conf/bibm/bibm2025.html#WangZWX25

Lei Wang 0205 Chen Huang Mingxia Wang Zhidong Xue Yan Wang NeuroPred-PLM: an interpretable and robust model for neuropeptide prediction by protein language model. 2023 March 24 Briefings Bioinform. 2 https://doi.org/10.1093/bib/bbad077 db/journals/bib/bib24.html#WangHWXW23

Qiang Shi Weiya Chen Siqi Huang Yan Wang Zhidong Xue Deep learning for mining protein data. 194-218 2021 22 Briefings Bioinform. 1 https://doi.org/10.1093/bib/bbz156 https://www.wikidata.org/entity/Q92193829 db/journals/bib/bib22.html#ShiCHWX21

Weiya Chen Chun Yao Yingzhong Guo Yan Wang Zhidong Xue pmTM-align: scalable pairwise and multiple structure alignment with Apache Spark and OpenMP. 426 2020 21 BMC Bioinform. 1 https://doi.org/10.1186/s12859-020-03757-2 https://www.wikidata.org/entity/Q100384578 db/journals/bmcbi/bmcbi21.html#ChenYGWX20

Weiya Chen Chenchen Yu Chenyu Tu Zehua Lyu Jing Tang Shiqi Ou Yan Fu Zhidong Xue A Survey on Hand Pose Estimation with Wearable Sensors and Computer-Vision-Based Methods. 1074 2020 20 Sensors 4 https://doi.org/10.3390/s20041074 https://www.wikidata.org/entity/Q89804848 db/journals/sensors/sensors20.html#ChenYTLTOFX20

Qiang Shi Weiya Chen Siqi Huang Fanglin Jin Yinghao Dong Yan Wang Zhidong Xue DNN-Dom: predicting protein domain boundary from sequence alone by deep neural network. 5128-5136 2019 35 Bioinform. 24 https://doi.org/10.1093/bioinformatics/btz464 https://www.wikidata.org/entity/Q92734585 db/journals/bioinformatics/bioinformatics35.html#ShiCHJDWX19

Jian Wang Tailang Yin Xuwen Xiao Dan He Zhidong Xue Xinnong Jiang Yan Wang StraPep: a structure database of bioactive peptides. bay038 2018 2018 Database J. Biol. Databases Curation https://doi.org/10.1093/database/bay038 https://www.wikidata.org/entity/Q52567287 db/journals/biodb/biodb2018.html#WangYXHXJW18

Weiya Chen Yulin Wan Shiqi Ou Zhidong Xue Evaluation of Lightweight Local Descriptors for Level Ground Navigation with Monocular SLAM. 347-358 2018 PRCV (4) https://doi.org/10.1007/978-3-030-03341-5_29 conf/prcv/2018-4 db/conf/prcv/prcv2018-4.html#ChenWOX18

Yan Wang Jian Wang Ruiming Li Qiang Shi Zhidong Xue Yang Zhang 0040 ThreaDomEx: a unified platform for predicting continuous and discontinuous protein domains by multiple-threading and segment assembly. W400-W407 2017 45 Nucleic Acids Res. Webserver-Issue https://doi.org/10.1093/nar/gkx410 https://www.wikidata.org/entity/Q38789142 db/journals/nar/nar45.html#WangWLSXZ17

Yan Wang Jouko Virtanen Zhidong Xue Yang Zhang 0040 I-TASSER-MR: automated molecular replacement for distant-homology proteins using iterative fragment assembly and progressive sequence truncation. W429-W434 2017 45 Nucleic Acids Res. Webserver-Issue https://doi.org/10.1093/nar/gkx349 https://www.wikidata.org/entity/Q38803922 db/journals/nar/nar45.html#WangVXZ17

Yan Wang Mingxia Wang Sanwen Yin Richard Jang Jian Wang Zhidong Xue Tao Xu NeuroPep: a comprehensive resource of neuropeptides. 2015 2015 Database J. Biol. Databases Curation https://doi.org/10.1093/database/bav038 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4414954/ https://www.wikidata.org/entity/Q35554904 db/journals/biodb/biodb2015.html#WangWYJWXX15

Zhidong Xue Dong Xu Yan Wang Yang Zhang 0040 ThreaDom: extracting protein domain boundary information from multiple threading alignments. 247-256 2013 29 Bioinform. 13 https://doi.org/10.1093/bioinformatics/btt209 https://www.wikidata.org/entity/Q36960736 db/journals/bioinformatics/bioinformatics29.html#XueXWZ13

Weiya Chen Xiaosheng Dong Yinghao Dong Yan Fu Chunxia Ge Yingzhong Guo Dan He Chen Huang Siqi Huang Richard Jang Xinnong Jiang Fanglin Jin Ruiming Li Zehua Lyu Shiqi Ou Qiang Shi Jing Tang Chenyu Tu Jouko Virtanen Yulin Wan Jian Wang Lei Wang Lei Wang 0205 Mingxia Wang Yan Wang Xuwen Xiao Dong Xu Tao Xu Chun Yao Hongyang Ye Sanwen Yin Tailang Yin Chenchen Yu Zilu Zeng Yang Zhang 0040 Changrong Zheng