Sheng Wang - RankMe

101 papers A* 9A 1B 5Misc 3Journal 61Unranked 20

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	Could statistical potential models achieve comparable or better performance than deep learning models? Briefings Bioinform. Zhihao Wang, Sheng Wang, Jingjing Guo, Yuguang Mu, Xiangdong Liu, Liangzhen Zheng, Weifeng Li
2025	A*	`conf`	Group Ligands Docking to Protein Pockets. ICLR Jiaqi Guan, Jiahan Li, Xiangxin Zhou, Xingang Peng, Sheng Wang, Yunan Luo, Jian Peng, Jianzhu Ma
2025	J	`jnl`	Group Ligands Docking to Protein Pockets. CoRR Jiaqi Guan, Jiahan Li, Xiangxin Zhou, Xingang Peng, Sheng Wang, Yunan Luo, Jian Peng, Jianzhu Ma
2025	J	`jnl`	zERExtractor:An Automated Platform for Enzyme-Catalyzed Reaction Data Extraction from Scientific Literature. CoRR Rui Zhou, Haohui Ma, Tianle Xin, Lixin Zou, Qiuyue Hu, Hongxi Cheng, Mingzhi Lin, Jingjing Guo, Sheng Wang, Guoqing Zhang, Yanjie Wei, Liangzhen Zheng
2024	J	`jnl`	A new paradigm for applying deep learning to protein-ligand interaction prediction. Briefings Bioinform. Zechen Wang, Sheng Wang, Yangyang Li, Jingjing Guo, Yanjie Wei, Yuguang Mu, Liangzhen Zheng, Weifeng Li
2024	J	`jnl`	Atom-ProteinQA: Atom-level protein model quality assessment through fine-grained joint learning. Comput. Methods Programs Biomed. Yatong Han, Yingfeng Lu, Xu Yan, Hannah Cui, Shenghui Cheng, Jiayou Zheng, Yuzhe Zhou, Sheng Wang, Zhen Li
2024	J	`jnl`	Hotspot-Driven Peptide Design via Multi-Fragment Autoregressive Extension. CoRR Jiahan Li, Tong Chen, Shitong Luo, Chaoran Cheng, Jiaqi Guan, Ruihan Guo, Sheng Wang, Ge Liu, Jian Peng, Jianzhu Ma
2024	J	`jnl`	OpenDock: a pytorch-based open-source framework for protein-ligand docking and modelling. Bioinform. Qiuyue Hu, Zechen Wang, Jintao Meng, Weifeng Li, Jingjing Guo, Yuguang Mu, Sheng Wang, Liangzhen Zheng, Yanjie Wei
2023	J	`jnl`	A fully differentiable ligand pose optimization framework guided by deep learning and a traditional scoring function. Briefings Bioinform. Zechen Wang, Liangzhen Zheng, Sheng Wang, Mingzhi Lin, Zhihao Wang, Adams Wai-Kin Kong, Yuguang Mu, Yanjie Wei, Weifeng Li
2023	J	`jnl`	A physics-informed convolutional neural network for the simulation and prediction of two-phase Darcy flows in heterogeneous porous media. J. Comput. Phys. Zhao Zhang, Xia Yan, Piyang Liu, Kai Zhang, Renmin Han, Sheng Wang
2023	J	`jnl`	Molecule Sequence Generation with Rebalanced Variational Autoencoder Loss. J. Comput. Biol. Chaochao Yan, Jinyu Yang, Hehuan Ma, Sheng Wang, Junzhou Huang
2022	A*	`conf`	Antigen-Specific Antibody Design and Optimization with Diffusion-Based Generative Models for Protein Structures. NeurIPS Shitong Luo, Yufeng Su, Xingang Peng, Sheng Wang, Jian Peng, Jianzhu Ma
2022	A*	`conf`	Contact-Distil: Boosting Low Homologous Protein Contact Map Prediction by Self-Supervised Distillation. AAAI Qin Wang, Jiayang Chen, Yuzhe Zhou, Yu Li, Liangzhen Zheng, Sheng Wang, Zhen Li, Shuguang Cui
2022	J	`jnl`	PointSite: A Point Cloud Segmentation Tool for Identification of Protein Ligand Binding Atoms. J. Chem. Inf. Model. Xu Yan, Yingfeng Lu, Zhen Li, Qing Wei, Xin Gao, Sheng Wang, Song Wu, Shuguang Cui
2022	J	`jnl`	Prior knowledge facilitates low homologous protein secondary structure prediction with DSM distillation. Bioinform. Qin Wang, Jun Wei, Yuzhe Zhou, Mingzhi Lin, Ruobing Ren, Sheng Wang, Shuguang Cui, Zhen Li
2022	—	`conf`	Weakly Supervised Object Localization Through Inter-class Feature Similarity and Intra-class Appearance Consistency. ECCV (30) Jun Wei, Sheng Wang, S. Kevin Zhou, Shuguang Cui, Zhen Li
2021	A*	`conf`	Adaptive Residue-wise Profile Fusion for Low Homologous Protein Secondary Structure Prediction Using External Knowledge. IJCAI Qin Wang, Jun Wei, Boyuan Wang, Zhen Li, Sheng Wang, Shuguang Cui
2021	J	`jnl`	Adaptive Residue-wise Profile Fusion for Low Homologous Protein SecondaryStructure Prediction Using External Knowledge. CoRR Qin Wang, Jun Wei, Boyuan Wang, Zhen Li, Sheng Wang, Shuguang Cui
2021	J	`jnl`	Comprehensive Study on Enhancing Low-Quality Position-Specific Scoring Matrix with Deep Learning for Accurate Protein Structure Property Prediction: Using Bagging Multiple Sequence Alignment Learning. J. Comput. Biol. Yuzhi Guo, Jiaxiang Wu, Hehuan Ma, Sheng Wang, Junzhou Huang
2021	J	`jnl`	EBM-Fold: Fully-Differentiable Protein Folding Powered by Energy-based Models. CoRR Jiaxiang Wu, Shitong Luo, Tao Shen, Haidong Lan, Sheng Wang, Junzhou Huang
2021	J	`jnl`	EPTool: A New Enhancing PSSM Tool for Protein Secondary Structure Prediction. J. Comput. Biol. Yuzhi Guo, Jiaxiang Wu, Hehuan Ma, Sheng Wang, Junzhou Huang
2021	A*	`conf`	InstanceRefer: Cooperative Holistic Understanding for Visual Grounding on Point Clouds through Instance Multi-level Contextual Referring. ICCV Zhihao Yuan, Xu Yan, Yinghong Liao, Ruimao Zhang, Sheng Wang, Zhen Li, Shuguang Cui
2021	A*	`conf`	PSSM-Distil: Protein Secondary Structure Prediction (PSSP) on Low-Quality PSSM by Knowledge Distillation with Contrastive Learning. AAAI Qin Wang, Boyuan Wang, Zhenlei Xu, Jiaxiang Wu, Peilin Zhao, Zhen Li, Sheng Wang, Junzhou Huang, Shuguang Cui
2021	A*	`conf`	Shallow Feature Matters for Weakly Supervised Object Localization. CVPR Jun Wei, Qin Wang, Zhen Li, Sheng Wang, S. Kevin Zhou, Shuguang Cui
2021	J	`jnl`	Shallow Feature Matters for Weakly Supervised Object Localization. CoRR Jun Wei, Qin Wang, Zhen Li, Sheng Wang, S. Kevin Zhou, Shuguang Cui
2021	J	`jnl`	tFold-TR: Combining Deep Learning Enhanced Hybrid Potential Energy for Template-Based Modelling Structure Refinement. CoRR Liangzhen Zheng, Haidong Lan, Tao Shen, Jiaxiang Wu, Sheng Wang, Wei Liu, Junzhou Huang
2020	—	`ch.`	A Web-Based Protocol for Interprotein Contact Prediction by Deep Learning. Protein-Protein Interaction Networks Xiaoyang Jing, Hong Zeng, Sheng Wang, Jinbo Xu
2020	—	`conf`	An Efficient Hybrid Model for Kidney Tumor Segmentation in CT Images. ISBI Xu Yan, Kun Yuan, Weibing Zhao, Sheng Wang, Zhen Li, Shuguang Cui
2020	B	`conf`	Bagging MSA Learning: Enhancing Low-Quality PSSM with Deep Learning for Accurate Protein Structure Property Prediction. RECOMB Yuzhi Guo, Jiaxiang Wu, Hehuan Ma, Sheng Wang, Junzhou Huang
2020	—	`conf`	Characterizing Label Errors: Confident Learning for Noisy-Labeled Image Segmentation. MICCAI (1) Minqing Zhang, Jiantao Gao, Zhen Lyu, Weibing Zhao, Qin Wang, Weizhen Ding, Sheng Wang, Zhen Li, Shuguang Cui
2020	J	`jnl`	DeepSimulator1.5: a more powerful, quicker and lighter simulator for Nanopore sequencing. Bioinform. Yu Li, Sheng Wang, Chongwei Bi, Zhaowen Qiu, Mo Li, Xin Gao
2020	—	`conf`	Improving Molecular Property Prediction on Limited Data with Deep Multi-Label Learning. BIBM Hehuan Ma, Chaochao Yan, Yuzhi Guo, Sheng Wang, Yuhong Wang, Hongmao Sun, Junzhou Huang
2020	—	`conf`	Label-Driven Reconstruction for Domain Adaptation in Semantic Segmentation. ECCV (27) Jinyu Yang, Weizhi An, Sheng Wang, Xinliang Zhu, Chaochao Yan, Junzhou Huang
2020	J	`jnl`	Label-Driven Reconstruction for Domain Adaptation in Semantic Segmentation. CoRR Jinyu Yang, Weizhi An, Sheng Wang, Xinliang Zhu, Chaochao Yan, Junzhou Huang
2020	J	`jnl`	Novel algorithms for efficient subsequence searching and mapping in nanopore raw signals towards targeted sequencing. Bioinform. Renmin Han, Sheng Wang, Xin Gao
2020	A*	`conf`	PointASNL: Robust Point Clouds Processing Using Nonlocal Neural Networks With Adaptive Sampling. CVPR Xu Yan, Chaoda Zheng, Zhen Li, Sheng Wang, Shuguang Cui
2020	J	`jnl`	PointASNL: Robust Point Clouds Processing using Nonlocal Neural Networks with Adaptive Sampling. CoRR Xu Yan, Chaoda Zheng, Zhen Li, Sheng Wang, Shuguang Cui
2020	—	`conf`	Protein Ensemble Learning with Atrous Spatial Pyramid Networks for Secondary Structure Prediction. BIBM Yuzhi Guo, Jiaxiang Wu, Hehuan Ma, Sheng Wang, Junzhou Huang
2020	—	`conf`	Re-balancing Variational Autoencoder Loss for Molecule Sequence Generation. BCB Chaochao Yan, Sheng Wang, Jinyu Yang, Tingyang Xu, Junzhou Huang
2019	J	`jnl`	AuTom-dualx: a toolkit for fully automatic fiducial marker-based alignment of dual-axis tilt series with simultaneous reconstruction. Bioinform. Renmin Han, Xiaohua Wan, Lun Li, Albert F. Lawrence, Peng Yang, Yu Li, Sheng Wang, Fei Sun, Zhiyong Liu, Xin Gao, Fa Zhang
2019	J	`jnl`	Exploring the functional impact of alternative splicing on human protein isoforms using available annotation sources. Briefings Bioinform. Dinanath Sulakhe, Mark D'Souza, Sheng Wang, Sandhya Balasubramanian, Prashanth Athri, Bingqing Xie, Stefan Canzar, Gady Agam, T. Conrad Gilliam, Natalia Maltsev
2019	—	`conf`	Graph Convolutional Nets for Tool Presence Detection in Surgical Videos. IPMI Sheng Wang, Zheng Xu, Chaochao Yan, Junzhou Huang
2019	J	`jnl`	Identification of pathways associated with chemosensitivity through network embedding. PLoS Comput. Biol. Sheng Wang, Edward W. Huang, Junmei Cairns, Jian Peng, Liewei Wang, Saurabh Sinha
2019	J	`jnl`	PredMP: a web server for de novo prediction and visualization of membrane proteins. Bioinform. Sheng Wang, Shiyang Fei, Zongan Wang, Yu Li, Jinbo Xu, Feng Zhao, Xin Gao
2019	J	`jnl`	Re-balancing Variational Autoencoder Loss for Molecule Sequence Generation. CoRR Chaochao Yan, Sheng Wang, Jinyu Yang, Tingyang Xu, Junzhou Huang
2019	—	`conf`	SMILES-BERT: Large Scale Unsupervised Pre-Training for Molecular Property Prediction. BCB Sheng Wang, Yuzhi Guo, Yuhong Wang, Hongmao Sun, Junzhou Huang
2019	—	`conf`	Transmembrane Topology Identification by Fusing Evolutionary and Co-evolutionary Information with Cascaded Bidirectional Transformers. BCB Zhen Li, Chongming Ni, Jinbo Xu, Xin Gao, Shuguang Cui, Sheng Wang
2019	—	`conf`	Transmembrane Topology Identification by Fusing Evolutionary and Co-evolutionary Information with Cascaded Bidirectional Transformers. BCB Zhen Li, Chongming Ni, Jinbo Xu, Xin Gao, Shuguang Cui, Sheng Wang
2018	A*	`conf`	Adaptive Graph Convolutional Neural Networks. AAAI Ruoyu Li, Sheng Wang, Feiyun Zhu, Junzhou Huang
2018	J	`jnl`	Adaptive Graph Convolutional Neural Networks. CoRR Ruoyu Li, Sheng Wang, Feiyun Zhu, Junzhou Huang
2018	J	`jnl`	An accurate and rapid continuous wavelet dynamic time warping algorithm for end-to-end mapping in ultra-long nanopore sequencing. Bioinform. Renmin Han, Yu Li, Xin Gao, Sheng Wang
2018	Misc	`conf`	Annotating gene sets by mining large literature collections with protein networks. PSB Sheng Wang, Jianzhu Ma, Michael Ku Yu, Fan Zheng, Edward W. Huang, Jiawei Han, Jian Peng, Trey Ideker
2018	J	`jnl`	ComplexContact: a web server for inter-protein contact prediction using deep learning. Nucleic Acids Res. Hong Zeng, Sheng Wang, Tianming Zhou, Feifeng Zhao, Xiufeng Li, Qing Wu, Jinbo Xu
2018	J	`jnl`	DEEPre: sequence-based enzyme EC number prediction by deep learning. Bioinform. Yu Li, Sheng Wang, Ramzan Umarov, Bingqing Xie, Ming Fan, Lihua Li, Xin Gao
2018	B	`conf`	Deep Learning Reveals Many More Inter-protein Residue-Residue Contacts than Direct Coupling Analysis. RECOMB Tianming Zhou, Sheng Wang, Jinbo Xu
2018	J	`jnl`	DeepSimulator: a deep simulator for Nanopore sequencing. Bioinform. Yu Li, Renmin Han, Chongwei Bi, Mo Li, Sheng Wang, Xin Gao
2018	Misc	`conf`	Large-scale integration of heterogeneous pharmacogenomic data for identifying drug mechanism of action. PSB Yunan Luo, Sheng Wang, Jinfeng Xiao, Jian Peng
2018	J	`jnl`	PRIM: An Efficient Preconditioning Iterative Reweighted Least Squares Method for Parallel Brain MRI Reconstruction. Neuroinformatics Zheng Xu, Sheng Wang, Yeqing Li, Feiyun Zhu, Junzhou Huang
2018	J	`jnl`	Protein threading using residue co-variation and deep learning. Bioinform. Jianwei Zhu, Sheng Wang, Dongbo Bu, Jinbo Xu
2018	J	`jnl`	RaptorX-Angle: real-value prediction of protein backbone dihedral angles through a hybrid method of clustering and deep learning. BMC Bioinform. Yujuan Gao, Sheng Wang, Minghua Deng, Jinbo Xu
2018	—	`conf`	Robust Contextual Bandit via the Capped- ℓ _2 ℓ 2 Norm for Mobile Health Intervention. MLMI@MICCAI Feiyun Zhu, Xinliang Zhu, Sheng Wang, Jiawen Yao, Zhichun Xiao, Junzhou Huang
2018	—	`conf`	Seq3seq Fingerprint: Towards End-to-end Semi-supervised Deep Drug Discovery. BCB Xiaoyu Zhang, Sheng Wang, Feiyun Zhu, Zheng Xu, Yuhong Wang, Junzhou Huang
2018	J	`jnl`	WaveNano: a signal-level nanopore base-caller via simultaneous prediction of nucleotide labels and move labels through bi-directional WaveNets. Quant. Biol. Sheng Wang, Zhen Li, Yizhou Yu, Xin Gao
2017	J	`jnl`	Accurate De Novo Prediction of Protein Contact Map by Ultra-Deep Learning Model. PLoS Comput. Biol. Sheng Wang, Siqi Sun, Zhen Li, Renyu Zhang, Jinbo Xu
2017	—	`conf`	Deep learning based multi-label classification for surgical tool presence detection in laparoscopic videos. ISBI Sheng Wang, Ashwin Raju, Junzhou Huang
2017	J	`jnl`	DeepBound: accurate identification of transcript boundaries via deep convolutional neural fields. Bioinform. Mingfu Shao, Jianzhu Ma, Sheng Wang
2017	B	`conf`	Folding Membrane Proteins by Deep Transfer Learning. RECOMB Zhen Li, Sheng Wang, Yizhou Yu, Jinbo Xu
2017	J	`jnl`	Folding membrane proteins by deep transfer learning. CoRR Sheng Wang, Zhen Li, Yizhou Yu, Jinbo Xu
2017	J	`jnl`	Network-assisted target identification for haploinsufficiency and homozygous profiling screens. PLoS Comput. Biol. Sheng Wang, Jian Peng
2017	J	`jnl`	Predicting membrane protein contacts from non-membrane proteins by deep transfer learning. CoRR Zhen Li, Sheng Wang, Yizhou Yu, Jinbo Xu
2017	Misc	`conf`	ProSNet: integrating homology with molecular networks for protein function prediction. PSB Sheng Wang, Meng Qu, Jian Peng
2017	J	`jnl`	Robust Contextual Bandit via the Capped-$\ell_{2}$ norm. CoRR Feiyun Zhu, Xinliang Zhu, Sheng Wang, Jiawen Yao, Junzhou Huang
2017	—	`conf`	Seq2seq Fingerprint: An Unsupervised Deep Molecular Embedding for Drug Discovery. BCB Zheng Xu, Sheng Wang, Feiyun Zhu, Junzhou Huang
2016	—	`conf`	AUC-Maximized Deep Convolutional Neural Fields for Protein Sequence Labeling. ECML/PKDD (2) Sheng Wang, Siqi Sun, Jinbo Xu
2016	J	`jnl`	AUCpreD: proteome-level protein disorder prediction by AUC-maximized deep convolutional neural fields. Bioinform. Sheng Wang, Jianzhu Ma, Jinbo Xu
2016	J	`jnl`	Accurate De Novo Prediction of Protein Contact Map by Ultra-Deep Learning Model. CoRR Sheng Wang, Siqi Sun, Zhen Li, Renyu Zhang, Jinbo Xu
2016	J	`jnl`	CMsearch: simultaneous exploration of protein sequence space and structure space improves not only protein homology detection but also protein structure prediction. Bioinform. Xuefeng Cui, Zhiwu Lu, Sheng Wang, Jim Jing-Yan Wang, Xin Gao
2016	J	`jnl`	CoinFold: a web server for protein contact prediction and contact-assisted protein folding. Nucleic Acids Res. Sheng Wang, Wei Li, Renyu Zhang, Shiwang Liu, Jinbo Xu
2016	—	`conf`	Imaging Biomarker Discovery for Lung Cancer Survival Prediction. MICCAI (2) Jiawen Yao, Sheng Wang, Xinliang Zhu, Junzhou Huang
2016	J	`jnl`	Lynx: a knowledge base and an analytical workbench for integrative medicine. Nucleic Acids Res. Dinanath Sulakhe, Bingqing Xie, Andrew Taylor, Mark D'Souza, Sandhya Balasubramanian, Somaye Hashemifar, Steven White, Utpal J. Dave, Gady Agam, Jinbo Xu, Sheng Wang, T. Conrad Gilliam, Natalia Maltsev
2016	J	`jnl`	RaptorX-Property: a web server for protein structure property prediction. Nucleic Acids Res. Sheng Wang, Wei Li, Shiwang Liu, Jinbo Xu
2016	—	`conf`	Subtype Cell Detection with an Accelerated Deep Convolution Neural Network. MICCAI (2) Sheng Wang, Jiawen Yao, Zheng Xu, Junzhou Huang
2015	J	`jnl`	AUC-maximized Deep Convolutional Neural Fields for Sequence Labeling. CoRR Sheng Wang, Siqi Sun, Jinbo Xu
2015	—	`conf`	Bermuda: de novo assembly of transcripts with new insights for handling uneven coverage. BCB Qingming Tang, Sheng Wang, Jian Peng, Jianzhu Ma, Jinbo Xu
2015	J	`jnl`	Exploiting ontology graph for predicting sparsely annotated gene function. Bioinform. Sheng Wang, Hyunghoon Cho, ChengXiang Zhai, Bonnie Berger, Jian Peng
2015	—	`conf`	Predicting diverse M-best protein contact maps. BIBM Siqi Sun, Jianzhu Ma, Sheng Wang, Jinbo Xu
2015	B	`conf`	Protein Contact Prediction by Integrating Joint Evolutionary Coupling Analysis and Supervised Learning. RECOMB Jianzhu Ma, Sheng Wang, Zhiyong Wang, Jinbo Xu
2015	—	`book`	Protein Homology Detection Through Alignment of Markov Random Fields - Using MRFalign Jinbo Xu, Sheng Wang, Jianzhu Ma
2015	J	`jnl`	Protein contact prediction by integrating joint evolutionary coupling analysis and supervised learning. Bioinform. Jianzhu Ma, Sheng Wang, Zhiyong Wang, Jinbo Xu
2015	J	`jnl`	Protein secondary structure prediction using deep convolutional neural fields. CoRR Sheng Wang, Jian Peng, Jianzhu Ma, Jinbo Xu
2014	J	`jnl`	Lynx: a database and knowledge extraction engine for integrative medicine. Nucleic Acids Res. Dinanath Sulakhe, Sandhya Balasubramanian, Bingqing Xie, Bo Feng, Andrew Taylor, Sheng Wang, Eduardo Berrocal, Utpal J. Dave, Jinbo Xu, Daniela Börnigen, T. Conrad Gilliam, Natalia Maltsev
2014	B	`conf`	MRFalign: Protein Homology Detection through Alignment of Markov Random Fields. RECOMB Jianzhu Ma, Sheng Wang, Zhiyong Wang, Jinbo Xu
2014	J	`jnl`	MRFalign: Protein Homology Detection through Alignment of Markov Random Fields. CoRR Jianzhu Ma, Sheng Wang, Zhiyong Wang, Jinbo Xu
2014	J	`jnl`	MRFalign: Protein Homology Detection through Alignment of Markov Random Fields. PLoS Comput. Biol. Jianzhu Ma, Sheng Wang, Zhiyong Wang, Jinbo Xu
2013	A	`conf`	Estimating the Partition Function of Graphical Models Using Langevin Importance Sampling. AISTATS Jianzhu Ma, Jian Peng, Sheng Wang, Jinbo Xu
2013	J	`jnl`	Protein contact prediction by joint evolutionary coupling analysis across multiple families. CoRR Jianzhu Ma, Sheng Wang, Jinbo Xu
2013	J	`jnl`	Protein threading using context-specific alignment potential. Bioinform. Jianzhu Ma, Sheng Wang, Feng Zhao, Jinbo Xu
2012	J	`jnl`	A conditional neural fields model for protein threading. Bioinform. Jianzhu Ma, Jian Peng, Sheng Wang, Jinbo Xu
2011	J	`jnl`	Alignment of distantly related protein structures: algorithm, bound and implications to homology modeling. Bioinform. Sheng Wang, Jian Peng, Jinbo Xu
2011	J	`jnl`	Incorporating Ab Initio energy into threading approaches for protein structure prediction. BMC Bioinform. Mingfu Shao, Sheng Wang, Chao Wang, Xiongying Yuan, Shuai Li, Wei-Mou Zheng, Dongbo Bu
2008	J	`jnl`	ClEPaps: Fast Pair Alignment of protein Structures Based on conformational Letters. J. Bioinform. Comput. Biol. Sheng Wang, Wei-Mou Zheng