Parallel divide and conquer bio-sequence comparison based on smith-waterman algorithm. - Fa Zhang 001; Xiangzhen Qiao; Zhiyong Liu 002 (Sci. China Ser. F Inf. Sci., 2004)

Clustering of eukaryotic orthologs based on sequence and Domain Similarities using the Markov Graph-Flow Algorithm. - Hatice Gulcin Ozer; Jingchun Chen; Fa Zhang 001; Bo Yuan (Advances in Bioinformatics and Its Applications, 2005)

The Construction of Structural Templates for the Modeling of conserved protein Domains. - Fa Zhang 001; Jingchun Chen; Zhiyong Liu 002; Bo Yuan (Advances in Bioinformatics and Its Applications, 2005)

A profile-based protein sequence alignment algorithm for a domain clustering database. - Lin Xu; Fa Zhang 001; Zhiyong Liu 002 (CIBCB, 2006)

A method to integrate, assess and characterize the protein-protein interactions. - Fa Zhang 001; Lin Xu; Jingchun Chen; Zhiyong Liu 002; Bo Yuan (CIBCB, 2006)

A method to improve structural modeling based on conserved domain clusters. - Fa Zhang 001; Lin Xu; Bo Yuan (IPDPS, 2006)

Using Domain-Based Structural Ensemble to Improve Structure Modeling. - Fa Zhang 001; Zhaoyun Ma; Zhiyong Liu 002; Bo Yuan (BIBE, 2007)

Improved structural modeling based on conserved domain clusters and structure-anchored alignments. - Fa Zhang 001; Lin Xu; Zhiyong Liu 002; Bo Yuan (SAC, 2007)

An improvement method based on OrthoMCL by adding the domain information. - Xinyu Que; Fa Zhang 001; Shengzhong Feng; Bo Yuan; Zhiyong Liu 002 (BIOCOMP, 2008)

A New Method for Remote Protein Classification. - Yugang Li; Zhiyong Liu 002; Fa Zhang 001; ZhenGe Qiu (BMEI, 2009)

An effective scheduling algorithm for Linear Makespan Minimization on Unrelated Parallel Machines. - Liya Fan; Fa Zhang 001; Gongming Wang; Zhiyong Liu 002 (HiPC, 2009)

Modified Simultaneous Algebraic Reconstruction Technique and its Parallelization in Cryo-electron Tomography. - Xiaohua Wan; Fa Zhang 001; Zhiyong Liu 002 (ICPADS, 2009)

A framework to refine particle clusters produced by EMAN. - Liya Fan; Fa Zhang 001; Gongming Wang; Zhiyong Liu 002 (Bioinform., 2009)

A Self-adaptive Greedy Scheduling Scheme for a Multi-Objective Optimization on Identical Parallel Machines. - Liya Fan; Fa Zhang 001; Gongming Wang; Bo Yuan; Zhiyong Liu 002 (Software Engineering, Artificial Intelligence, Networking and Parallel/Distributed Computing, 2009)

An accurate, automatic method for markerless alignment of electron tomographic images. - Qi Chu 002; Fa Zhang 001; Kai Zhang; Xiaohua Wan; Mingwei Chen; Zhiyong Liu 002 (BIBM, 2010)

Protein Sequence Alignment Algorithm Based on Hybrid Profile Information. - Yan Jia 001; Ziyang Chen; Xuan Wang 002; Fa Zhang 001 (BIOCOMP, 2010)

Protein classification using family profiles. - Yugang Li; Yao Lu; Fa Zhang 001; ZhenGe Qiu; Zhiyong Liu 002 (FSKD, 2010)

A fast mapping method in the ISAF reconstruction algorithm. - Gongming Wang; Fa Zhang 001; Qi Chu 002; Fei Sun; Zhiyong Liu 002 (EMBC, 2011)

Time-Slot Energy-Efficient Scheduling Algorithm for Capacity Limited Networks. - Chenying Hou; Fa Zhang 001; Lin Wang 015; Zhiyong Liu 002 (GreenCom, 2011)

High-Performance Blob-Based Iterative Reconstruction of Electron Tomography on Multi-GPUs. - Xiaohua Wan; Fa Zhang 001; Qi Chu 002; Zhiyong Liu 002 (ISBRA, 2011)

Energy-Efficient Network Routing with Discrete Cost Functions. - Lin Wang 015; Antonio Fernández Anta; Fa Zhang 001; Chenying Hou; Zhiyong Liu 002 (TAMC, 2012)

High-performance blob-based iterative three-dimensional reconstruction in electron tomography using multi-GPUs. - Xiaohua Wan; Fa Zhang 001; Qi Chu 002; Zhiyong Liu 002 (BMC Bioinform., 2012)

An Accelerated ISAF Algorithm with the Fast Mapping Strategy. - Gongming Wang; Fa Zhang 001; Fei Sun; Zhiyong Liu 002 (J. Comput., 2012)

An effective approximation algorithm for the Malleable Parallel Task Scheduling problem. - Liya Fan; Fa Zhang 001; Gongming Wang; Zhiyong Liu 002 (J. Parallel Distributed Comput., 2012)

Energy-Efficient Scheduling with Time and Processors Eligibility Restrictions. - Xibo Jin; Fa Zhang 001; Ying Song; Liya Fan; Zhiyong Liu 002 (Euro-Par, 2013)

Risk management for virtual machines consolidation in data centers. - Xibo Jin; Fa Zhang 001; Songlin Hu 001; Zhiyong Liu 002 (GLOBECOM, 2013)

Improving the Network Energy Efficiency in MapReduce Systems. - Lin Wang 015; Fa Zhang 001; Zhiyong Liu 002 (ICCCN, 2013)

Discrete Min-Energy Scheduling on Restricted Parallel Processors. - Xibo Jin; Fa Zhang 001; Zhiyong Liu 002 (IPDPS Workshops, 2013)

A Universally Stable and Energy-Efficient Scheduling Protocol for Packet Switching Network. - Yangguang Shi; Fa Zhang 001; Zhiyong Liu 002 (NCA, 2013)

Incorporating Rate Adaptation Into Green Networking for Future Data Centers. - Lin Wang 015; Fa Zhang 001; Chenying Hou; Jordi Arjona Aroca; Zhiyong Liu 002 (NCA, 2013)

A fast calculation strategy of density function in ISAF reconstruction algorithm. - Gongming Wang; Fa Zhang 001; Qi Chu 002; Liya Fan; Fei Sun; Zhiyong Liu 002 (Sci. China Inf. Sci., 2013)

Routing for Energy Minimization with Discrete Cost Functions - Lin Wang 015; Antonio Fernández Anta; Fa Zhang 001; Chenying Hou; Zhiyong Liu 002 (CoRR, 2013)

A General Framework for Achieving Energy Efficiency in Data Center Networks - Lin Wang 015; Fa Zhang 001; Jordi Arjona Aroca; Athanasios V. Vasilakos; Kai Zheng 003; Chenying Hou; Dan Li 001; Zhiyong Liu 002 (CoRR, 2013)

Iterative Methods in Large Field Electron Microscope Tomography. - Xiaohua Wan; Sebastien Phan; Albert F. Lawrence; Fa Zhang 001; Renmin Han; Zhiyong Liu 002; Mark H. Ellisman (SIAM J. Sci. Comput., 2013)

A hop-by-hop energy efficient distributed routing scheme. - Chenying Hou; Fa Zhang 001; Antonio Fernández Anta; Lin Wang 015; Zhiyong Liu 002 (SIGMETRICS Perform. Evaluation Rev., 2013)

Joint virtual machine assignment and traffic engineering for green data center networks. - Lin Wang 015; Fa Zhang 001; Athanasios V. Vasilakos; Chenying Hou; Zhiyong Liu 002 (SIGMETRICS Perform. Evaluation Rev., 2013)

Oblivious Integral Routing for Minimizing the Quadratic Polynomial Cost. - Yangguang Shi; Fa Zhang 001; Zhiyong Liu 002 (FAW, 2014)

Energy-Efficient Flow Scheduling and Routing with Hard Deadlines in Data Center Networks. - Lin Wang 015; Fa Zhang 001; Kai Zheng 003; Athanasios V. Vasilakos; Shaolei Ren; Zhiyong Liu 002 (ICDCS, 2014)

Polylogarithmic Competitive Algorithm for Energy Minimization in Optical WDM Networks. - Yangguang Shi; Fa Zhang 001; Zhiyong Liu 002 (ICNP, 2014)

Joint power optimization through VM placement and flow scheduling in data centers. - Dawei Li 002; Jie Wu 001; Zhiyong Liu 002; Fa Zhang 001 (IPCCC, 2014)

An Improved Correlation Method Based on Rotation Invariant Feature for Automatic Particle Selection. - Yu Chen; Fei Ren; Xiaohua Wan; Xuan Wang 002; Fa Zhang 001 (ISBRA, 2014)

A Parallel Scheme for Three-Dimensional Reconstruction in Large-Field Electron Tomography. - Jingrong Zhang; Xiaohua Wan; Fa Zhang 001; Fei Ren; Xuan Wang 002; Zhiyong Liu 002 (ISBRA, 2014)

DEER: A distributed routing scheme for achieving network energy efficiency. - Biyu Zhou; Lin Wang 015; Fa Zhang 001; Xibo Jin; Zhiyong Liu 002 (LANMAN, 2014)

Improving the Load Balance of MapReduce Operations based on the Key Distribution of Pairs. - Liya Fan; Bo Gao; Xi Sun; Fa Zhang 001; Zhiyong Liu 002 (CoRR, 2014)

OS4M: Achieving Global Load Balance of MapReduce Workload by Scheduling at the Operation Level. - Liya Fan; Bo Gao; Fa Zhang 001; Zhiyong Liu 002 (CoRR, 2014)

GreenDCN: A General Framework for Achieving Energy Efficiency in Data Center Networks. - Lin Wang 015; Fa Zhang 001; Jordi Arjona Aroca; Athanasios V. Vasilakos; Kai Zheng 003; Chenying Hou; Dan Li 001; Zhiyong Liu 002 (IEEE J. Sel. Areas Commun., 2014)

Truthful Strategy and Resource Integration for Multi-tenant Data Center Demand Response. - Youshi Wang; Fa Zhang 001; Zhiyong Liu 002 (FAW, 2015)

Dual-centric Data Center Network Architectures. - Dawei Li 002; Jie Wu 001; Zhiyong Liu 002; Fa Zhang 001 (ICPP, 2015)

Multi-resource energy-efficient routing in cloud data centers with network-as-a-service. - Lin Wang 015; Antonio Fernández Anta; Fa Zhang 001; Jie Wu 001; Zhiyong Liu 002 (ISCC, 2015)

Multi-resource Energy-efficient Routing in Cloud Data Centers with Networks-as-a-Service. - Lin Wang 015; Antonio Fernández Anta; Fa Zhang 001; Jie Wu 001; Zhiyong Liu 002 (CoRR, 2015)

Scheduling for energy minimization on restricted parallel processors. - Xibo Jin; Fa Zhang 001; Liya Fan; Ying Song; Zhiyong Liu 002 (J. Parallel Distributed Comput., 2015)

Randomized oblivious integral routing for minimizing power cost. - Yangguang Shi; Fa Zhang 001; Jie Wu 001; Zhiyong Liu 002 (Theor. Comput. Sci., 2015)

aWGRS: Automates paired-end whole genome re-sequencing data analysis framework. - Xiujuan Sun; Fa Zhang 001; Xiaohua Wan; Jinzhi Zhang (BIBM, 2016)

COMRANCE: A rapid method for Network-on-Chip design space exploration. - Mingzhe Zhang; Yangguang Shi; Fa Zhang 001; Zhiyong Liu 002 (IGSC, 2016)

Green Data Centers: A Survey, Perspectives, and Future Directions. - Xibo Jin; Fa Zhang 001; Athanasios V. Vasilakos; Zhiyong Liu 002 (CoRR, 2016)

HDEER: A Distributed Routing Scheme for Energy-Efficient Networking. - Biyu Zhou; Fa Zhang 001; Lin Wang 015; Chenying Hou; Antonio Fernández Anta; Athanasios V. Vasilakos; Youshi Wang; Jie Wu 001; Zhiyong Liu 002 (IEEE J. Sel. Areas Commun., 2016)

Joint Optimization of Server and Network Resource Utilization in Cloud Data Centers. - Biyu Zhou; Jie Wu 001; Lin Wang 015; Fa Zhang 001; Zhiyong Liu 002 (GLOBECOM, 2017)

Energy efficiency in colocation data centers: A joint incentive mechanism approach. - Youshi Wang; Fa Zhang 001; Shaolei Ren; Fangming Liu; Rui Wang 028; Zhiyong Liu 002 (IGSC, 2017)

PABO: Congestion mitigation via packet bounce. - Xiang Shi; Lin Wang 015; Fa Zhang 001; Kai Zheng 003; Zhiyong Liu 002 (ICC, 2017)

Cost Reduction in Hybrid Clouds for Enterprise Computing. - Biyu Zhou; Fa Zhang 001; Jie Wu 001; Zhiyong Liu 002 (ICDCS Workshops, 2017)

Online Flow Scheduling with Deadline for Energy Conservation in Data Center Networks. - Biyu Zhou; Jie Wu 001; Lin Wang 015; Fa Zhang 001; Zhiyong Liu 002 (ICPADS, 2017)

Resource optimization for survivable embedding of virtual clusters in cloud data centers. - Biyu Zhou; Jie Wu 001; Fa Zhang 001; Zhiyong Liu 002 (IPCCC, 2017)

A Fully Automatic Geometric Parameters Determining Method for Electron Tomography. - Yu Chen; Zihao Wang; Lun Li; Xiaohua Wan; Fei Sun; Fa Zhang 001 (ISBRA, 2017)

Accelerating Electron Tomography Reconstruction Algorithm ICON Using the Intel Xeon Phi Coprocessor on Tianhe-2 Supercomputer. - Zihao Wang; Yu Chen; Jingrong Zhang; Lun Li; Xiaohua Wan; Zhiyong Liu 002; Fei Sun; Fa Zhang 001 (ISBRA, 2017)

Real-time Task Scheduling for joint energy efficiency optimization in data centers. - Youshi Wang; Fa Zhang 001; Rui Wang 028; Yangguang Shi; Hua Guo; Zhiyong Liu 002 (ISCC, 2017)

Hardness of Routing for Minimizing Superlinear Polynomial Cost in Directed Graphs. - Yangguang Shi; Fa Zhang 001; Zhiyong Liu 002 (TAMC, 2017)

A Two-Phase Improved Correlation Method for Automatic Particle Selection in Cryo-EM. - Fa Zhang 001; Yu Chen; Fei Ren; Xuan Wang 002; Zhiyong Liu 002; Xiaohua Wan (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

Joint Optimization of Operational Cost and Performance Interference in Cloud Data Centers. - Xibo Jin; Fa Zhang 001; Lin Wang 015; Songlin Hu 001; Biyu Zhou; Zhiyong Liu 002 (IEEE Trans. Cloud Comput., 2017)

Towards the Tradeoffs in Designing Data Center Network Architectures. - Dawei Li 002; Jie Wu 001; Zhiyong Liu 002; Fa Zhang 001 (IEEE Trans. Parallel Distributed Syst., 2017)

Fiducial marker detection via deep learning approach for electron tomography. - Yu Hao; Renmin Han; Xiaohua Wan; Fa Zhang 001; Shiwei Sun (BIBM, 2018)

Mmalloc: A Dynamic Memory Management on Many-core Coprocessor for the Acceleration of Storage-intensive Bioinformatics Application. - Zihao Wang; Mingzhe Zhang; Jingrong Zhang; Rui Yan 009; Xiaohua Wan; Zhiyong Liu 002; Fa Zhang 001; Xuefeng Cui (BIBM, 2018)

A Hybrid Convolutional and Recurrent Deep Neural Network for Breast Cancer Pathological Image Classification. - Rui Yan 009; Fei Ren; Zihao Wang; Lihua Wang; Yubo Ren; Yudong Liu; Xiaosong Rao; Chunhou Zheng 001; Fa Zhang 001 (BIBM, 2018)

Energy-aware Fault-tolerant Scheduling Scheme based on Intelligent Prediction Model for Cloud Data Center. - Avinab Marahatta; Ce Chi; Fa Zhang 001; Zhiyong Liu 002 (IGSC, 2018)

Memory-Efficient and Stabilizing Management System and Parallel Methods for RELION Using CUDA and MPI. - Jingrong Zhang; Zihao Wang; Yu Chen; Zhiyong Liu 002; Fa Zhang 001 (ISBRA, 2018)

A fast fiducial marker tracking model for fully automatic alignment in electron tomography. - Renmin Han; Fa Zhang 001; Xin Gao 001 (Bioinform., 2018)

DLBI: deep learning guided Bayesian inference for structure reconstruction of super-resolution fluorescence microscopy. - Yu Li 006; Fan Xu; Fa Zhang 001; Pingyong Xu; Mingshu Zhang; Ming Fan 003; Lihua Li 002; Xin Gao 001; Renmin Han (Bioinform., 2018)

PABO: A Link-Layer Congestion Mitigation Mechanism Based on Packet Bounce. - Xiang Shi; Lin Wang 015; Fa Zhang 001; Kai Zheng 003; Max Mühlhäuser; Zhiyong Liu 002 (CoRR, 2018)

SegET: Deep Neural Network with Rich Contextual Features for Cellular Structures Segmentation in Electron Tomography Image. - Enze Zhang; Fa Zhang 001; Zhiyong Liu 002; Xiaohua Wan; Lifa Zhu (CoRR, 2018)

ICON-MIC: Implementing a CPU/MIC Collaboration Parallel Framework for ICON on Tianhe-2 Supercomputer. - Zihao Wang; Yu Chen; Jingrong Zhang; Lun Li; Xiaohua Wan; Zhiyong Liu 002; Fei Sun; Fa Zhang 001 (J. Comput. Biol., 2018)

Classification in Cryo-Electron Tomograms. - Ilja Gubins; Gijs van der Schot; Remco C. Veltkamp; Friedrich Förster; Xuefeng Du; Xiangrui Zeng; Zhenxi Zhu; Lufan Chang; Min Xu 009; Emmanuel Moebel; Antonio Martínez-Sánchez; Charles Kervrann; et al. (3DOR@Eurographics, 2019)

Cerebrovascular Segmentation Algorithm Based on Focused Multi-Gaussians Model and Weighted 3D Markov Random Field. - Zhilong Lv; Rui Yan 009; Xinyu Liu 008; Zhongke Wu; Yicheng Zhu; Shiwei Sun; Fa Zhang 001; Xingce Wang; Xiaohua Wan (BIBM, 2019)

Predicting Tumor Mutational Burden from Liver Cancer Pathological Images Using Convolutional Neural Network. - Hong Zhang; Fa Zhang 001; Fei Ren; Zhonglie Wang; Xiaosong Rao; Li Li; Junbo Hao; Rui Yan 009; Jiancheng Luo; Ming Du (BIBM, 2019)

Integration of Multimodal Data for Breast Cancer Classification Using a Hybrid Deep Learning Method. - Rui Yan 009; Fei Ren; Xiaosong Rao; Baorong Shi; Tiange Xiang; Lingling Zhang; Yudong Liu; Jun Liang; Chunhou Zheng 001; Fa Zhang 001 (ICIC (1), 2019)

Classifying Mixed Patterns of Proteins in High-Throughput Microscopy Images Using Deep Neural Networks. - Enze Zhang; Boheng Zhang; Shaohan Hu; Fa Zhang 001; Xiaohua Wan (ICIC (1), 2019)

FStream: Flexible Stream Scheduling and Prioritizing in Multipath-QUIC. - Xiang Shi; Lin Wang 015; Fa Zhang 001; Zhiyong Liu 002 (ICPADS, 2019)

DM-SIRT: A Distributed Method for Multi-tilt Reconstruction in Electron Tomography. - Zihao Wang; Jingrong Zhang; Xintong Liu; Zhiyong Liu 002; Xiaohua Wan; Fa Zhang 001 (ISBRA, 2019)

A joint method for marker-free alignment of tilt series in electron tomography. - Renmin Han; Zhipeng Bao; Xiangrui Zeng; Tongxin Niu; Fa Zhang 001; Min Xu 009; Xin Gao 001 (Bioinform., 2019)

AuTom-dualx: a toolkit for fully automatic fiducial marker-based alignment of dual-axis tilt series with simultaneous reconstruction. - Renmin Han; Xiaohua Wan; Lun Li; Albert F. Lawrence; Peng Yang 010; Yu Li 006; Sheng Wang 001; Fei Sun; Zhiyong Liu 002; Xin Gao 001; Fa Zhang 001 (Bioinform., 2019)

PIXER: an automated particle-selection method based on segmentation using a deep neural network. - Jingrong Zhang; Zihao Wang; Yu Chen; Renmin Han; Zhiyong Liu 002; Fei Sun; Fa Zhang 001 (BMC Bioinform., 2019)

PABO: Mitigating congestion via packet bounce in data center networks. - Xiang Shi; Lin Wang 015; Fa Zhang 001; Kai Zheng 003; Max Mühlhäuser; Zhiyong Liu 002 (Comput. Commun., 2019)

Energy-Aware Fault-Tolerant Dynamic Task Scheduling Scheme for Virtualized Cloud Data Centers. - Avinab Marahatta; Youshi Wang; Fa Zhang 001; Arun Kumar Sangaiah; Sumarga Kumar Sah Tyagi; Zhiyong Liu 002 (Mob. Networks Appl., 2019)

A market-oriented incentive mechanism for emergency demand response in colocation data centers. - Youshi Wang; Fa Zhang 001; Ce Chi; Shaolei Ren; Fangming Liu; Rui Wang 028; Zhiyong Liu 002 (Sustain. Comput. Informatics Syst., 2019)

LR-Net: A Multi-task Model Using Relationship-based Contour Information to Enhance the Semantic Segmentation of Cancer Regions. - Baorong Shi; Hong Zhang; Rui Yan 009; Wang Jing; Jinfeng Zang; Fa Zhang 001 (BIBM, 2020)

NANet: Nuclei-Aware Network for Grading of Breast Cancer in HE Stained Pathological Images. - Rui Yan 009; Jintao Li 001; Xiaosong Rao; Zhilong Lv; Chunhou Zheng 001; Jinjin Dou; Xiaowen Wang; Fei Ren; Fa Zhang 001 (BIBM, 2020)

Jointly Optimizing the IT and Cooling Systems for Data Center Energy Efficiency based on Multi-Agent Deep Reinforcement Learning. - Ce Chi; Kaixuan Ji; Avinab Marahatta; Penglei Song; Fa Zhang 001; Zhiyong Liu 002 (e-Energy, 2020)

Energy Efficient Scheduling Based on Marginal Cost and Task Grouping in Data Centers. - Kaixuan Ji; Ce Chi; Avinab Marahatta; Fa Zhang 001; Zhiyong Liu 002 (e-Energy, 2020)

Eco-friendly Dynamic Task Scheduling for Regional Data Center. - Avinab Marahatta; Ce Chi; Kaixuan Ji; Carlos Juiz; Fa Zhang 001; Zhiyong Liu 002 (e-Energy, 2020)

PriorityBucket: A Multipath-QUIC Scheduler on Accelerating First Rendering Time in Page Loading. - Xiang Shi; Fa Zhang 001; Zhiyong Liu 002 (e-Energy, 2020)

An Energy Saving-Oriented Incentive Mechanism in Colocation Data Centers. - Ce Chi; Kaixuan Ji; Avinab Marahatta; Fa Zhang 001; Youshi Wang; Zhiyong Liu 002 (ICCCN, 2020)

PStream: Priority-Based Stream Scheduling for Heterogeneous Paths in Multipath-QUIC. - Xiang Shi; Lin Wang 015; Fa Zhang 001; Biyu Zhou; Zhiyong Liu 002 (ICCCN, 2020)

An Integration Framework for Liver Cancer Subtype Classification and Survival Prediction Based on Multi-omics Data. - Zhonglie Wang; Rui Yan 009; Jie Liu; Yudong Liu; Fei Ren; Chunhou Zheng 001; Fa Zhang 001 (ICIC (3), 2020)

Dilated-DenseNet for Macromolecule Classification in Cryo-electron Tomography. - Shan Gao; Renmin Han; Xiangrui Zeng; Xuefeng Cui; Zhiyong Liu 002; Min Xu 009; Fa Zhang 001 (ISBRA, 2020)

An Incentive Mechanism for Improving Energy Efficiency of Colocation Data Centers Based on Power Prediction. - Ce Chi; Kaixuan Ji; Avinab Marahatta; Fa Zhang 001; Youshi Wang; Zhiyong Liu 002 (ISCC, 2020)

Compressed sensing improved iterative reconstruction-reprojection algorithm for electron tomography. - Lun Li; Renmin Han; Zhaotian Zhang; Tiande Guo; Zhiyong Liu 002; Fa Zhang 001 (BMC Bioinform., 2020)

SHREC 2020: Classification in cryo-electron tomograms. - Ilja Gubins; Marten L. Chaillet; Gijs van der Schot; Remco C. Veltkamp; Friedrich Förster; Yu Hao; Xiaohua Wan 001; Xuefeng Cui; Fa Zhang 001; Emmanuel Moebel; Xiao Wang 004; Daisuke Kihara; et al. (Comput. Graph., 2020)

A Consensus Framework of Distributed Multiple-Tilt Reconstruction in Electron Tomography. - Zihao Wang; Jingrong Zhang; Weifang Gao; Zhiyong Liu 002; Xiaohua Wan; Fa Zhang 001 (J. Comput. Biol., 2020)

SHREC 2021: Classification in Cryo-electron Tomograms. - Ilja Gubins; Marten L. Chaillet; Gijs van der Schot; M. Cristina Trueba; Remco C. Veltkamp; Friedrich Förster; Xiao Wang 004; Daisuke Kihara; Emmanuel Moebel; Nguyen P. Nguyen; Tommi A. White; Filiz Bunyak; et al. (3DOR, 2021)

Moment Invariants with Data Augmentation for Tongue Image Segmentation. - Senlin Lin; Xuekun Song; Ziheng Xu; Xinyue Zhang; Yingqing Lin; Rui Zhang; Yulong Chen; Fa Zhang 001; Dehui Qiu; Yuling Zheng; Xiaohua Wan (BIBM, 2021)

PG-TFNet: Transformer-based Fusion Network Integrating Pathological Images and Genomic Data for Cancer Survival Analysis. - Zhilong Lv; Yuexiao Lin; Rui Yan 009; Zhenghe Yang; Ying Wang 043; Fa Zhang 001 (BIBM, 2021)

TransPicker: a Transformer-based Framework for Particle Picking in cryoEM Micrographs. - Chi Zhang; Hongjia Li; Xiaohua Wan; Xuemei Chen; Zhenghe Yang; Jieqing Feng; Fa Zhang 001 (BIBM, 2021)

A Deep Reinforcement Learning-based Task Scheduling Algorithm for Energy Efficiency in Data Centers. - Penglei Song; Ce Chi; Kaixuan Ji; Zhiyong Liu 002; Fa Zhang 001; Shikui Zhang; Dehui Qiu; Xiaohua Wan (ICCCN, 2021)

A Hybrid Frequency-Spatial Domain Model for Sparse Image Reconstruction in Scanning Transmission Electron Microscopy. - Bintao He; Fa Zhang 001; Huanshui Zhang; Renmin Han (ICCV, 2021)

Self-Supervised Cryo-Electron Tomography Volumetric Image Restoration from Single Noisy Volume with Sparsity Constraint. - Zhidong Yang; Fa Zhang 001; Renmin Han (ICCV, 2021)

Decomposition-and-Fusion Network for HE-Stained Pathological Image Classification. - Rui Yan 009; Jintao Li 001; S. Kevin Zhou; Zhilong Lv; Xueyuan Zhang; Xiaosong Rao; Chunhou Zheng 001; Fei Ren; Fa Zhang 001 (ICIC (3), 2021)

Predicting Drug-Disease Associations Based on Network Consistency Projection. - Qiang Zhang; Zonglan Zuo; Rui Yan 009; Chunhou Zheng 001; Fa Zhang 001 (ICIC (3), 2021)

Spatio-Temporal Features Processing Network for Change Detection in Remote Sensing Images. - Zihao Yang; Zhaobin Cao; Xiaohua Wan; Fa Zhang 001; Guangming Tan (IGARSS, 2021)

A Multi-GPU Design for Large Size Cryo-EM 3D Reconstruction. - Zihao Wang; Xiaohua Wan; Zhiyong Liu 002; Qianshuo Fan; Fa Zhang 001; Guangming Tan (IPDPS, 2021)

PickerOptimizer: A Deep Learning-Based Particle Optimizer for Cryo-Electron Microscopy Particle-Picking Algorithms. - Hongjia Li; Ge Chen; Shan Gao; Jintao Li 001; Fa Zhang 001 (ISBRA, 2021)

A new meta-heuristic task scheduling algorithm for optimizing energy efficiency in data centers. - Shikui Zhang; Ce Chi; Kaixuan Ji; Zhiyong Liu 002; Fa Zhang 001; Penglei Song; Huimei Yuan; Dehui Qiu; Xiaohua Wan (ISPA/BDCloud/SocialCom/SustainCom, 2021)

A novel constrained reconstruction model towards high-resolution subtomogram averaging. - Renmin Han; Lun Li; Peng Yang 010; Fa Zhang 001; Xin Gao 001 (Bioinform., 2021)

Multi-labelled proteins recognition for high-throughput microscopy images using deep convolutional neural networks. - Enze Zhang; Boheng Zhang; Shaohan Hu; Fa Zhang 001; Zhiyong Liu 002; Xiaohua Wan (BMC Bioinform., 2021)

Preface. - Yi Pan 001; De-Shuang Huang; Jian-Xin Wang 001; Fa Zhang 001 (J. Comput. Sci. Technol., 2021)

Richer fusion network for breast cancer classification based on multimodal data. - Rui Yan 009; Fa Zhang 001; Xiaosong Rao; Zhilong Lv; Jintao Li 001; Lingling Zhang; Shuang Liang; Yilin Li; Fei Ren; Chunhou Zheng 001; Jun Liang (BMC Medical Informatics Decis. Mak., 2021)

Improving energy efficiency in colocation data centers for demand response. - Ce Chi; Fa Zhang 001; Kaixuan Ji; Avinab Marahatta; Zhiyong Liu 002 (Sustain. Comput. Informatics Syst., 2021)

A joint energy efficiency optimization scheme based on marginal cost and workload prediction in data centers. - Kaixuan Ji; Fa Zhang 001; Ce Chi; Penglei Song; Biyu Zhou; Avinab Marahatta; Zhiyong Liu 002 (Sustain. Comput. Informatics Syst., 2021)

Improve the Resolution and Parallel Performance of the Three-Dimensional Refine Algorithm in RELION Using CUDA and MPI. - Jingrong Zhang; Zihao Wang; Zhiyong Liu 002; Fa Zhang 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

Classification-Based and Energy-Efficient Dynamic Task Scheduling Scheme for Virtualized Cloud Data Center. - Avinab Marahatta; Sandeep Pirbhulal; Fa Zhang 001; Reza M. Parizi; Kim-Kwang Raymond Choo; Zhiyong Liu 002 (IEEE Trans. Cloud Comput., 2021)

PEFS: AI-Driven Prediction Based Energy-Aware Fault-Tolerant Scheduling Scheme for Cloud Data Center. - Avinab Marahatta; Qin Xin 001; Ce Chi; Fa Zhang 001; Zhiyong Liu 002 (IEEE Trans. Sustain. Comput., 2021)

Hexagonal Convolutional Neural Network for Spatial Transcriptomics Classification. - Jing Gao; Fa Zhang 001; Kai Hu 002; Xuefeng Cui (BIBM, 2022)

A Segmentation-aware Synergy Network for Single Particle Recognition in Cryo-EM. - Shuo Li; Hongjia Li; Chi Zhang; Fa Zhang 001; Xiaohua Wan (BIBM, 2022)

Temporal Correlation Network for Video Polyp Segmentation. - Ziheng Xu; Dehui Qiu; Senlin Lin; Xinyue Zhang; Sheng Shi; Shengtao Zhu; Fa Zhang 001; Xiaohua Wan (BIBM, 2022)

Predicting Drug-Disease Associations by Self-topological Generalized Matrix Factorization with Neighborhood Constraints. - Xiaoguang Li; Qiang Zhang; Zonglan Zuo; Rui Yan 009; Chunhou Zheng 001; Fa Zhang 001 (ICIC (2), 2022)

CSAM: A Channel and Spatial Attention Mechanism for Impervious Surface Extraction in Difficult Areas. - Fangyuan Zhao; Xiaohua Wan; Sijia Li; Zhongchang Sun; Wenjing Zhang; Dehui Qiu; Fa Zhang 001; Xinyu Liu 008; Guangming Tan (IGARSS, 2022)

Joint Region-Attention and Multi-scale Transformer for Microsatellite Instability Detection from Whole Slide Images in Gastrointestinal Cancer. - Zhilong Lv; Rui Yan 009; Yuexiao Lin; Ying Wang 043; Fa Zhang 001 (MICCAI (2), 2022)

Noise-Transfer2Clean: denoising cryo-EM images based on noise modeling and transfer. - Hongjia Li; Hui Zhang; Xiaohua Wan; Zhidong Yang; Chengmin Li; Jintao Li 001; Renmin Han; Ping Zhu; Fa Zhang 001 (Bioinform., 2022)

VP-Detector: A 3D multi-scale dense convolutional neural network for macromolecule localization and classification in cryo-electron tomograms. - Yu Hao; Xiaohua Wan; Rui Yan 009; Zhiyong Liu 002; Jintao Li 001; Shihua Zhang; Xuefeng Cui; Fa Zhang 001 (Comput. Methods Programs Biomed., 2022)

A Transfer Learning-Based Classification Model for Particle Pruning in Cryo-Electron Microscopy. - Hongjia Li; Ge Chen; Shan Gao; Jintao Li 001; Xiaohua Wan; Fa Zhang 001 (J. Comput. Biol., 2022)

Nuclei-Guided Network for Breast Cancer Grading in HE-Stained Pathological Images. - Rui Yan 009; Fei Ren; Jintao Li 001; Xiaosong Rao; Zhilong Lv; Chunhou Zheng 001; Fa Zhang 001 (Sensors, 2022)

Macromolecules Structural Classification With a 3D Dilated Dense Network in Cryo-Electron Tomography. - Shan Gao; Renmin Han; Xiangrui Zeng; Zhiyong Liu 002; Min Xu 009; Fa Zhang 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

Correction of image distortion in large-field ssEM stitching by an unsupervised intermediate-space solving network. - Bintao He; Yan Zhang; Fa Zhang 001; Renmin Han (Bioinform., 2022)

A Tongue Feature Extraction Method Based on a Sublingual Vein Segmentation. - Yulong Hu; Dehui Qiu; Xiaohua Wan; Juan Zhang; Xiaotong Wang; Fa Zhang 001; Bin Hu 001 (BIBM, 2023)

Integrative Drug Discovery Platform: A Modular Approach for Efficient and Automated Virtual Screening. - Tianci Li; Lulu Xie; Zhonghai Zhang; Xu Li; Bo Duan; Gang Niu 008; Shiwei Sun; Fa Zhang 001; Runting Zhang; Guangming Tan; Chunming Zhang (BIBM, 2023)

Variational Clustering and Denoising of Spatial Transcriptomics. - Cuiyuan Li; Fa Zhang 001; Kai Hu 002; Xuefeng Cui (BIBM, 2023)

GPU Optimization of Biological Macromolecule Multi-tilt Electron Tomography Reconstruction Algorithm. - Zi-Ang Fu; Xiaohua Wan; Fa Zhang 001 (ICIC (3), 2023)

A Novel Impervious Surface Extraction Method Based on Transformer. - Wenjing Zhang; Dehui Qiu; Xiaohua Wan; Fa Zhang 001; Huimei Yuan (IGARSS, 2023)

SaID: Simulation-Aware Image Denoising Pre-trained Model for Cryo-EM Micrographs. - Zhidong Yang; Hongjia Li; Dawei Zang; Renmin Han; Fa Zhang 001 (ISBRA, 2023)

A novel tongue feature extraction method on mobile devices. - Dehui Qiu; Xinyue Zhang; Xiaohua Wan; Jiacheng Li; Ziheng Xu; Senlin Lin; Fa Zhang 001; Xuekun Song; Rui Zhang; Yulong Chen; Yuling Zheng (Biomed. Signal Process. Control., 2023)

CryoAlign: feature-based method for global and local 3D alignment of EM density maps. - Bintao He; Fa Zhang 001; Chenjie Feng; Jianyi Yang 002; Xin Gao 001; Renmin Han (CoRR, 2023)

TransSurv: Transformer-Based Survival Analysis Model Integrating Histopathological Images and Genomic Data for Colorectal Cancer. - Zhilong Lv; Yuexiao Lin; Rui Yan 009; Ying Wang 043; Fa Zhang 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Cooperation of local features and global representations by a dual-branch network for transcription factor binding sites prediction. - Yutong Yu; Pengju Ding; Hongli Gao; Guozhu Liu; Fa Zhang 001; Bin Yu 007 (Briefings Bioinform., 2023)

A strategy combining denoising and cryo-EM single particle analysis. - Hui Zhang; Hongjia Li; Fa Zhang 001; Ping Zhu (Briefings Bioinform., 2023)

Com-DNB: A novel method for identifying critical states of complex biological processes and its parallelization. - Letian Wang; Yanbing Zhu; Xiaohua Wan; Yiming Zhang; Shuang Feng; Chang Li; Fa Zhang 001; Bin Hu 001 (BCB, 2024)

SelfAlign: Achieving Subtomogram Alignment with Self-Supervised Deep Learning. - Xuan Wang 002; Haofan Cao; Xinsheng Wang; Xiaohua Wan; Fa Zhang 001 (BIBM, 2024)

Advancing Template-Based Flexible Docking of P450-Heme Complexes via JAX MD. - Rongxu Guo; Cheng Chen; Jiaheng Sang; Guishan Cui; Fa Zhang 001; Xuefeng Cui; Shengying Li (BIBM, 2024)

Innovative 3D CTF Correction Techniques for Cryo-ET of Individual Particles. - Xuan Wang 002; Shiwei Liu; Xinsheng Wang; Xiaohua Wan; Fa Zhang 001 (BIBM, 2024)

IG-GRD: A Model Based on Disentangled Graph Representation Learning for Imaging Genetic Data Fusion. - Shuang Feng; Letian Wang; Chang Li; Xiaohua Wan; Fa Zhang 001; Bin Hu 001 (ICIC (2), 2024)

Serial Section Microscopy Image Inpainting Guided by Axial Optical Flow. - Yiran Cheng; Bintao He; Fa Zhang 001; Renmin Han (ACM Multimedia, 2024)

UPicker: a semi-supervised particle picking transformer method for cryo-EM micrographs. - Chi Zhang; Yiran Cheng; Kaiwen Feng; Fa Zhang 001; Renmin Han; Jieqing Feng (Briefings Bioinform., 2024)

A Disentangled Representation-Based Multimodal Fusion Framework Integrating Pathomics and Radiomics for KRAS Mutation Detection in Colorectal Cancer. - Zhilong Lv; Rui Yan 009; Yuexiao Lin; Lin Gao; Fa Zhang 001; Ying Wang 043 (Big Data Min. Anal., 2024)

Editorial: Special Section on Challenges and Opportunities in Biomedical Big Data Analysis: From Large Language Models to Clinical Applications. - Yanjie Wei; Huiling Zhang; Zhipeng Cai 001; Fa Zhang 001; Zhaolei Zhang (Big Data Min. Anal., 2024)

FP-Zernike: An Open-source Structural Database Construction Toolkit for Fast Structure Retrieval. - Junhai Qi; Chenjie Feng; Yulin Shi; Jianyi Yang 002; Fa Zhang 001; Guojun Li; Renmin Han (Genom. Proteom. Bioinform., 2024)

Improved Denoising of Cryo-Electron Microscopy Micrographs with Simulation-Aware Pretraining. - Zhidong Yang; Hongjia Li; Dawei Zang; Renmin Han; Fa Zhang 001 (J. Comput. Biol., 2024)

MSTCA-Net: A Novel Impervious Surface Extraction Method Based on a Multistage Transformer. - Xiaohua Wan; Wenjing Zhang; Dehui Qiu; Sijia Li; Fa Zhang 001; Zhongchang Sun; Bin Hu 001 (IEEE J. Sel. Top. Appl. Earth Obs. Remote. Sens., 2024)

Guest Editorial Computational Mathematics Modeling in Cancer Analysis. - Wenjian Qin; Tianming Liu 001; Fa Zhang 001 (IEEE J. Biomed. Health Informatics, 2024)

Sparse and Hierarchical Transformer for Survival Analysis on Whole Slide Images. - Rui Yan 009; Zhilong Lv; Zhidong Yang; Senlin Lin; Chun-Hou Zheng 001; Fa Zhang 001 (IEEE J. Biomed. Health Informatics, 2024)

Realize Generative Yet Complete Latent Representation for Incomplete Multi-View Learning. - Hongmin Cai; Weitian Huang; Sirui Yang; Siqi Ding; Yue Zhang 045; Bin Hu 001; Fa Zhang 001; Yiu-Ming Cheung (IEEE Trans. Pattern Anal. Mach. Intell., 2024)

MambaST: Hexagonal State Space Modeling for Spatial Domain Identification. - Xianglong Meng; Kai Hu 002; Xuefeng Cui; Fa Zhang 001 (ISBRA (1), 2025)

Similarity-guided multi-view functional brain network fusion. - Zhigang Li; Jingyu Liu 002; Mengkai Sun; Fa Zhang 001; Bin Hu 001; Qunxi Dong (Medical Image Anal., 2025)

Harmonic Wavelet Neural Network for Discovering Neuropathological Propagation Patterns in Alzheimer's Disease. - Hongmin Cai; Ranran Deng; Defu Yang; Fa Zhang 001; Guorong Wu 001; Jiazhou Chen (IEEE J. Biomed. Health Informatics, 2025)

Central Feature Network Enables Accurate Detection of Both Small and Large Particles in Cryo-Electron Tomography. - Yaoyu Wang; Xiaohua Wan; Cheng Chen; Fa Zhang 001; Xuefeng Cui (J. Comput. Sci. Technol., 2025)

Learning Uniform Latent Representation via Alternating Adversarial Network for Multi-View Clustering. - Yue Zhang 045; Weitian Huang; Xiaoxue Zhang; Sirui Yang; Fa Zhang 001; Xin Gao 001; Hongmin Cai (IEEE Trans. Emerg. Top. Comput. Intell., 2025)