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2020 – today
- 2024
[c16]Shibo Liu, Xuan Zhang, Anlei Jiao, Shiwei Sun, Longyang Dian, Xuefeng Cui:
Deep Representation Learning for Electron Ionization Mass Spectra Retrieval. BIBM 2024: 552-557- [c15]Kai Zhao, Yanmin Liu, Longyang Dian, Shiwei Sun, Xuefeng Cui:
How to Train Your Neural Network for Molecular Structure Generation from Mass Spectra? BIBM 2024: 817-822 - [i5]Shiwei Sun, Giovanni S. Alberti:
The learned range test method for the inverse inclusion problem. CoRR abs/2411.00463 (2024) - [i4]Xiaoyang Hou, Tian Zhu, Milong Ren, Dongbo Bu, Xin Gao, Chunming Zhang, Shiwei Sun:
Improving Molecular Graph Generation with Flow Matching and Optimal Transport. CoRR abs/2411.05676 (2024) - 2023
- [j32]Bin Huang, Tingwen Fan, Kaiyue Wang, Haicang Zhang, Chungong Yu, Shuyu Nie, Yangshuo Qi, Wei-Mou Zheng, Jian Han, Zheng Fan, Shiwei Sun, Sheng Ye, Huaiyi Yang, Dongbo Bu:
Accurate and efficient protein sequence design through learning concise local environment of residues. Bioinform. 39(3) (2023) - [j31]Xiaoyang Hou, Yu Wang, Dongbo Bu, Yaojun Wang, Shiwei Sun:
EMNGly: predicting N-linked glycosylation sites using the language models for feature extraction. Bioinform. 39(10) (2023) - [j30]Yaojun Wang
, Shiwei Sun:
Revolutionizing Antibody Discovery: An Innovative AI Model for Generating Robust Libraries. Genom. Proteom. Bioinform. 21(5): 910-912 (2023) - [j29]Shiwei Sun, Gen Nakamura, Haibing Wang:
Numerical studies of domain sampling methods for inverse boundary value problems by one measurement. J. Comput. Phys. 485: 112099 (2023) - [j28]Tiansu Gong, Fusong Ju, Shiwei Sun, Dongbo Bu:
SASA-Net: A Spatial-Aware Self-Attention Mechanism for Building Protein 3D Structure Directly From Inter- Residue Distances. IEEE ACM Trans. Comput. Biol. Bioinform. 20(6): 3482-3488 (2023) - [c14]Yongshuai Wang, Xiaojun Cai, Defeng Li, Shiwei Sun, Cheng Chen, Xuefeng Cui:
Learned Fingerprint Embedding for Large-Scale Peptide Mass Spectra Retrieval. BIBM 2023: 306-311 - [c13]Tianci Li, Lulu Xie, Zhonghai Zhang, Xu Li, Bo Duan, Gang Niu, Shiwei Sun, Fa Zhang, Runting Zhang, Guangming Tan, Chunming Zhang:
Integrative Drug Discovery Platform: A Modular Approach for Efficient and Automated Virtual Screening. BIBM 2023: 365-372 - 2022
- [j27]Fusong Ju, Jianwei Zhu, Qi Zhang, Guozheng Wei, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu:
Seq-SetNet: directly exploiting multiple sequence alignment for protein secondary structure prediction. Bioinform. 38(4): 990-996 (2022) - [j26]Lupeng Kong, Fusong Ju, Wei-Mou Zheng, Jianwei Zhu, Shiwei Sun, Jinbo Xu, Dongbo Bu:
ProALIGN: Directly Learning Alignments for Protein Structure Prediction via Exploiting Context-Specific Alignment Motifs. J. Comput. Biol. 29(2): 92-105 (2022) - [j25]Shiwei Sun, John R. Drake, Dianne J. Hall:
When Job Candidates Experience Social Media Privacy Violations: A Cross-Culture Study. J. Glob. Inf. Manag. 30(1): 1-25 (2022) - [c12]Zhilei Ren, Shiwei Sun, Jifeng Xuan, Xiaochen Li, Zhide Zhou, He Jiang:
Automated Patching for Unreproducible Builds. ICSE 2022: 200-211 - [c11]Junwei Kuang, Zhijun Yan, Shiwei Sun:
More User Engagement in Online Community: Effects of Posting and Replying Behaviors on Detection of Depression. PACIS 2022: 137 - 2021
- [j24]Lupeng Kong, Fusong Ju, Haicang Zhang, Shiwei Sun, Dongbo Bu:
FALCON2: a web server for high-quality prediction of protein tertiary structures. BMC Bioinform. 22(1): 439 (2021) - [j23]Bin Huang, Guozheng Wei, Bing Wang, Fusong Ju, Yi Zhong, Zhuozheng Shi, Shiwei Sun, Dongbo Bu:
Filling gaps of genome scaffolds via probabilistic searching optical maps against assembly graph. BMC Bioinform. 22(3): 533 (2021) - [j22]Wenyan Gu, Aizhong Zhou, Lusheng Wang, Shiwei Sun, Xuefeng Cui, Daming Zhu:
SVLR: Genome Structural Variant Detection Using Long-Read Sequencing Data. J. Comput. Biol. 28(8): 774-788 (2021) - [c10]Tiansu Gong, Fusong Ju, Shiwei Sun, Dongbo Bu:
SASA-Net: A spatial-aware self-attention mechanism for building protein 3D structure directly from inter-residue distances. BIBM 2021: 32-37 - [c9]Yu Wang, Hui Wang, Meijie Hou, Yaojun Wang, Dongbo Bu, Chunming Zhang, Chuncui Huang, Shiwei Sun:
Glycan immunogenicity prediction based on Graph neural network. BIBM 2021: 348-353 - 2020
- [j21]Qi Zhang, Jianwei Zhu, Fusong Ju, Lupeng Kong, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu:
ISSEC: inferring contacts among protein secondary structure elements using deep object detection. BMC Bioinform. 21(1): 503 (2020) - [c8]Yaojun Wang, Xinyu Hua, Yu Wang, Chunming Zhang, Dongbo Bu, Shiwei Sun, Xingce Wang:
Mut-Detecter: An EGFR activating mutation type classification method with a deep convolutional neural network. BIBM 2020: 2386-2389 - [c7]Wenyan Gu, Aizhong Zhou, Lusheng Wang, Shiwei Sun, Xuefeng Cui, Daming Zhu:
SVLR: Genome Structure Variant Detection Using Long Read Sequencing Data. ISBRA 2020: 140-153
2010 – 2019
- 2019
- [j20]Caifeng Zhang, Rui Ma, Shiwei Sun, Yujie Li, Yichuan Wang, Zhijun Yan:
Optimizing the Electronic Health Records Through Big Data Analytics: A Knowledge-Based View. IEEE Access 7: 136223-136231 (2019) - [j19]Yaojun Wang, Dongbo Bu, Chuncui Huang, Hui Wang, Jinyu Zhou, Junchuan Dong, Weiyi Pan, Jingwei Zhang, Qi Zhang, Yan Li, Shiwei Sun:
Best-first search guided multistage mass spectrometry-based glycan identification. Bioinform. 35(17): 2991-2997 (2019) - [j18]Haicang Zhang, Qi Zhang, Fusong Ju, Jianwei Zhu, Yujuan Gao, Ziwei Xie, Minghua Deng, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu:
Predicting protein inter-residue contacts using composite likelihood maximization and deep learning. BMC Bioinform. 20(1): 537:1-537:11 (2019) - [j17]Haicang Zhang, Qi Zhang, Fusong Ju, Jianwei Zhu, Yujuan Gao, Ziwei Xie, Minghua Deng, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu:
Correction to: Predicting protein inter-residue contacts using composite likelihood maximization and deep learning. BMC Bioinform. 20(1): 616:1-616:5 (2019) - [j16]Chao Wang, Yi Wei, Haicang Zhang, Lupeng Kong, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu:
Constructing effective energy functions for protein structure prediction through broadening attraction-basin and reverse Monte Carlo sampling. BMC Bioinform. 20-S(3): 99-108 (2019) - [j15]Fusong Ju, Jingwei Zhang, Dongbo Bu, Yan Li, Jinyu Zhou, Hui Wang, Yaojun Wang, Chuncui Huang, Shiwei Sun:
De novo glycan structural identification from mass spectra using tree merging strategy. Comput. Biol. Chem. 80: 217-224 (2019) - [c6]Zhilong Lv, Rui Yan, Xinyu Liu, Zhongke Wu, Yicheng Zhu, Shiwei Sun, Fa Zhang, Xingce Wang, Xiaohua Wan:
Cerebrovascular Segmentation Algorithm Based on Focused Multi-Gaussians Model and Weighted 3D Markov Random Field. BIBM 2019: 846-851 - [i3]Fusong Ju, Jianwei Zhu, Guozheng Wei, Qi Zhang, Shiwei Sun, Dongbo Bu:
Seq-SetNet: Exploring Sequence Sets for Inferring Structures. CoRR abs/1906.11196 (2019) - 2018
- [j14]Shiwei Sun, Casey G. Cegielski, Lin Jia, Dianne J. Hall:
Understanding the Factors Affecting the Organizational Adoption of Big Data. J. Comput. Inf. Syst. 58(3): 193-203 (2018) - [c5]Yu Hao, Renmin Han, Xiaohua Wan, Fa Zhang, Shiwei Sun:
Fiducial marker detection via deep learning approach for electron tomography. BIBM 2018: 642-645 - [i2]Haicang Zhang, Qi Zhang, Fusong Ju, Jianwei Zhu, Shiwei Sun, Yujuan Gao, Ziwei Xie, Minghua Deng, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu:
Predicting protein inter-residue contacts using composite likelihood maximization and deep learning. CoRR abs/1809.00083 (2018) - [i1]Haicang Zhang, Qi Zhang, Fusong Ju, Jianwei Zhu, Shiwei Sun, Yujuan Gao, Ziwei Xie, Minghua Deng, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu:
Predicting protein inter-residue contacts using composite likelihood maximization and deep learning. CoRR abs/1809.00083 (2018) - 2017
- [j13]Jianwei Zhu, Haicang Zhang, Shuai Cheng Li, Chao Wang, Lupeng Kong, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu:
Improving protein fold recognition by extracting fold-specific features from predicted residue-residue contacts. Bioinform. 33(23): 3749-3757 (2017) - [j12]Hai'e Gong, Haicang Zhang, Jianwei Zhu, Chao Wang, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu:
Improving prediction of burial state of residues by exploiting correlation among residues. BMC Bioinform. 18(S-3): 165-175 (2017) - [j11]Xiuquan Du, Shiwei Sun, Changlin Hu, Yu Yao, Yuan-Ting Yan, Yanping Zhang:
DeepPPI: Boosting Prediction of Protein-Protein Interactions with Deep Neural Networks. J. Chem. Inf. Model. 57(6): 1499-1510 (2017) - 2016
- [j10]Chao Wang, Haicang Zhang, Wei-Mou Zheng, Dong Xu, Jianwei Zhu, Bing Wang, Kang Ning, Shiwei Sun, Shuai Cheng Li, Dongbo Bu:
FALCON@home: a high-throughput protein structure prediction server based on remote homologue recognition. Bioinform. 32(3): 462-464 (2016) - [j9]Mohana Shanmugam, Shiwei Sun, Asra Amidi, Farzad Khani, Fariborz Khani:
The applications of social commerce constructs. Int. J. Inf. Manag. 36(3): 425-432 (2016) - [c4]Gaoshan Wang, Shiwei Sun, Liang Ma, Huixia Han:
Recovery Satisfaction, attitudinal Loyalty and Behavioural Loyalty: the Moderating Role of Perceived Risk. PACIS 2016: 333 - 2015
- [j8]Yaojun Wang, Fei Yang, Peng Wu, Dongbo Bu, Shiwei Sun:
OpenMS-Simulator: an open-source software for theoretical tandem mass spectrum prediction. BMC Bioinform. 16: 110:1-110:6 (2015) - [j7]Shiwei Sun, Xuetao Wang, Xin Gao, Lihui Ren, Xiaoquan Su, Dongbo Bu, Kang Ning:
Condensing Raman spectrum for single-cell phenotype analysis. BMC Bioinform. 16(S18): S15 (2015) - [j6]Qi Suo, Shiwei Sun, Nick Hajli, Peter E. D. Love:
User ratings analysis in social networks through a hypernetwork method. Expert Syst. Appl. 42(21): 7317-7325 (2015) - [c3]John R. Drake, Dianne J. Hall, Shiwei Sun, Yichuan Wang:
Job Applicants' Information Privacy-Protective Response: Exploring the Roles of Technology Readiness and Trust. AMCIS 2015 - 2014
- [c2]Lin Jia, Dianne J. Hall, Shiwei Sun:
The Effect of Technology Usage Habits on Consumers' Intention to Continue Use Mobile Payments. AMCIS 2014 - 2011
- [j5]Yantao Qiao, Hong Zhang, Dongbo Bu, Shiwei Sun:
PI: An open-source software package for validation of the SEQUEST result and visualization of mass spectrum. BMC Bioinform. 12: 234 (2011) - [j4]Shenghui Zhang, Yaojun Wang, Dongbo Bu, Hong Zhang, Shiwei Sun:
ProbPS: A new model for peak selection based on quantifying the dependence of the existence of derivative peaks on primary ion intensity. BMC Bioinform. 12: 346 (2011)
2000 – 2009
- 2008
- [c1]Yu Lin, Yantao Qiao, Shiwei Sun, Chungong Yu, Gongjin Dong, Dongbo Bu:
A Fragmentation Event Model for Peptide Identification by Mass Spectrometry. RECOMB 2008: 154-166 - 2007
- [j3]Chungong Yu, Yu Lin, Shiwei Sun, Jinjin Cai, Jingfen Zhang, Dongbo Bu, Zhuo Zhang, Runsheng Chen:
An Iterative Algorithm to Quantify Factors Influencing peptide Fragmentation during Tandem Mass Spectrometry. J. Bioinform. Comput. Biol. 5(2a): 297-311 (2007) - 2006
- [j2]Zhuo Zhang, Shiwei Sun, Xiaopeng Zhu, Suhua Chang, Xiaofei Liu, Chungong Yu, Dongbo Bu, Runsheng Chen:
A novel scoring schema for peptide identification by searching protein sequence databases using tandem mass spectrometry data. BMC Bioinform. 7: 222 (2006) - [j1]Yong Zhang, Shaojuan Li, Geir Skogerbø, Zhihua Zhang, Xiaopeng Zhu, Zefeng Zhang, Shiwei Sun, Hongchao Lu, Baochen Shi, Runsheng Chen:
Phylophenetic properties of metabolic pathway topologies as revealed by global analysis. BMC Bioinform. 7: 252 (2006)
Coauthor Index
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