Jinbo Xu

156 papers A* 4A 9B 17C 8Misc 5Journal 81Unranked 30
YearRankTypeTitle / Venue / Authors
2026 J jnl
Surface-based Molecular Design with Multi-modal Flow Matching.
CoRR
Fang Wu, Zhengyuan Zhou, Shuting Jin, Xiangxiang Zeng, Jure Leskovec, Jinbo Xu
2025 — conf
Bidirectional Hierarchical Protein Multi-Modal Representation Learning.
MLHC
Xuefeng Liu, Songhao Jiang, Chih-chan Tien, Jinbo Xu, Rick L. Stevens
2025 J jnl
Bidirectional Hierarchical Protein Multi-Modal Representation Learning.
CoRR
Xuefeng Liu, Songhao Jiang, Chih-chan Tien, Jinbo Xu, Rick Stevens
2025 J jnl
From Supervision to Exploration: What Does Protein Language Model Learn During Reinforcement Learning?
CoRR
Hanqun Cao, Hongrui Zhang, Junde Xu, Zhou Zhang, Lingdong Shen, Minghao Sun, Ge Liu, Jinbo Xu, Wu-Jun Li, Jinren Ni, Cesar de la Fuente-Nunez, Tianfan Fu, Yejin Choi, Pheng-Ann Heng, Fang Wu
2025 J jnl
Monte Carlo Tree Diffusion with Multiple Experts for Protein Design.
CoRR
Xuefeng Liu, Mingxuan Cao, Songhao Jiang, Xiao Luo, Xiaotian Duan, Mengdi Wang, Tobin R. Sosnick, Jinbo Xu, Rick Stevens
2025 C conf
PIAR: Path-Improved Adaptive Routing for Dragonfly Networks.
CLUSTER
Zhenghao Wang, Qiang Wang, Mingche Lai, Jiaqing Xu, Jinbo Xu, Min Xie, Guo Chen
2025 A* conf
Retrieval Augmented Zero-Shot Enzyme Generation for Specified Substrate.
ICML
Jiahe Du, Kaixiong Zhou, Xinyu Hong, Zhaozhuo Xu, Jinbo Xu, Xiao Huang
2025 — conf
ScaffoldGPT: A Scaffold-based GPT Model for Drug Optimization.
MLHC
Xuefeng Liu, Songhao Jiang, Ian T. Foster, Jinbo Xu, Rick L. Stevens
2025 — conf
Surface-based Molecular Design with Multi-modal Flow Matching.
KDD (2)
Fang Wu, Zhengyuan Zhou, Shuting Jin, Xiangxiang Zeng, Jure Leskovec, Jinbo Xu
2024 — conf
A Robust and Efficient Risk Assessment Framework for Multi-Step Attacks.
ICICT
Huimei Liao, Siyuan Leng, Junhai Yang, Jinbo Xu, Junhao Zhang, Jinling Tang
2024 J jnl
ABAG-docking benchmark: a non-redundant structure benchmark dataset for antibody-antigen computational docking.
Briefings Bioinform.
Nan Zhao, Bingqing Han, Cuicui Zhao, Jinbo Xu, Xinqi Gong
2024 C conf
Collective Communication Acceleration Architecture for Reduce Operation with Long Operands Based on Efficient Data Access and Reconfigurable On-Chip Buffer.
ISPA
Jinbo Xu, Zhengbin Pang, Yi Dai
2024 J jnl
Leveraging Multimodal Protein Representations to Predict Protein Melting Temperatures.
CoRR
Daiheng Zhang, Yan Zeng, Xinyu Hong, Jinbo Xu
2024 — conf
Prediction of single-stranded DNA binding proteins with protein language model.
BIBM
Siwen Wu, Jinbo Xu, Jun-tao Guo
2024 J jnl
Puppet Dynasty Recognition System Based on MobileNetV2.
Entropy
Xiaona Xie, Zeqian Liu, Yuanshuai Wang, Haoyue Fu, Mengqi Liu, Yingqin Zhang, Jinbo Xu
2024 J jnl
Support-Query Mutual Promotion and Classification Correction Network for Few-Shot Object Detection.
IEEE Signal Process. Lett.
Jinbo Xu, Yong Wang, Xiaoyu He, Yiqun Zou
2024 A conf
The Self-adaptive and Topology-aware MPI_Bcast leveraging Collective offload on Tianhe Express Interconnect.
IPDPS
Chongshan Liang, Yi Dai, Jun Xia, Jinbo Xu, Jintao Peng, Weixia Xu, Ming Xie, Jie Liu, Zhiquan Lai, Sheng Ma, Qi Zhu
2023 J jnl
CAID prediction portal: a comprehensive service for predicting intrinsic disorder and binding regions in proteins.
Nucleic Acids Res.
Alessio Del Conte, Adel Bouhraoua, Mahta Mehdiabadi, Damiano Clementel, Alexander Miguel Monzon, Alex S. Holehouse, Daniel A. Griffith, Ryan J. Emenecker, Ashwini Patil, Ronesh Sharma, Tatsuhiko Tsunoda, Alok Sharma, Yi Jun Tang, Bin Liu, Claudio Mirabello, Björn Wallner, Burkhard Rost, Dagmar Ilzhöfer, Maria Littmann, Michael Heinzinger, Lea I M. Krautheimer, Michael Bernhofer, Liam J. McGuffin, Isabelle Callebaut, Tristan Bitard Feildel, Jian Liu, Jianlin Cheng, Zhiye Guo, Jinbo Xu, Sheng Wang, Nawar Malhis, Jörg Gsponer, Chol-Song Kim, Kun-Sop Han, Myong-Chol Ma, Lukasz A. Kurgan, Sina Ghadermarzi, Akila Katuwawala, Bi Zhao, Zhenling Peng, Zhonghua Wu, Gang Hu, Kui Wang, Md. Tamjidul Hoque, Md Wasi Ul Kabir, Michele Vendruscolo, Pietro Sormanni, Min Li, Fuhao Zhang, Pengzhen Jia, Yida Wang, Michail Yu. Lobanov, Oxana V. Galzitskaya, Wim F. Vranken, Adrián Díaz, Thomas Litfin, Yaoqi Zhou, Jack Hanson, Kuldip K. Paliwal, Zsuzsanna Dosztányi, Gábor Erdös, Silvio C. E. Tosatto, Damiano Piovesan
2023 J jnl
Improved the heterodimer protein complex prediction with protein language models.
Briefings Bioinform.
Bo Chen, Ziwei Xie, Jiezhong Qiu, Zhaofeng Ye, Jinbo Xu, Jie Tang
2023 J jnl
Improving protein structure prediction using templates and sequence embedding.
Bioinform.
Fandi Wu, Xiaoyang Jing, Xiao Luo, Jinbo Xu
2023 J jnl
InstructBio: A Large-scale Semi-supervised Learning Paradigm for Biochemical Problems.
CoRR
Fang Wu, Huiling Qin, Siyuan Li, Stan Z. Li, Xianyuan Zhan, Jinbo Xu
2023 — conf
Research on the Aesthetic Connotation of New Media Ink Painting Art Based on Grounded Theory.
HCI (24)
Wenyi Xu, Jinbo Xu, Zhipeng Zhang
2022 J jnl
A tale of solving two computational challenges in protein science: neoantigen prediction and protein structure prediction.
Briefings Bioinform.
Ngoc Hieu Tran, Jinbo Xu, Ming Li
2022 J jnl
Accurate protein function prediction via graph attention networks with predicted structure information.
Briefings Bioinform.
Boqiao Lai, Jinbo Xu
2022 — conf
Analysis of the Attainable Design Paths of Non-heritage Cultural Tourism Immersion Experience - An Example of the Tujia City Living Room Project in Enshi Prefecture.
HCI (48)
Jinbo Xu, Yueqing Wei
2022 J jnl
Annotating functional effects of non-coding variants in neuropsychiatric cell types by deep transfer learning.
PLoS Comput. Biol.
Boqiao Lai, Sheng Qian, Hanwei Zhang, Siwei Zhang, Anna A. Kozlova, Jubao Duan, Jinbo Xu, Xin He
2022 J jnl
Deep graph learning of inter-protein contacts.
Bioinform.
Ziwei Xie, Jinbo Xu
2022 J jnl
ProALIGN: Directly Learning Alignments for Protein Structure Prediction via Exploiting Context-Specific Alignment Motifs.
J. Comput. Biol.
Lupeng Kong, Fusong Ju, Wei-Mou Zheng, Jianwei Zhu, Shiwei Sun, Jinbo Xu, Dongbo Bu
2022 J jnl
When Geometric Deep Learning Meets Pretrained Protein Language Models.
CoRR
Fang Wu, Tao Yu, Dragomir Radev, Jinbo Xu
2021 J jnl
Deep template-based protein structure prediction.
PLoS Comput. Biol.
Fandi Wu, Jinbo Xu
2021 J jnl
Fast and effective protein model refinement using deep graph neural networks.
Nat. Comput. Sci.
Xiaoyang Jing, Jinbo Xu
2021 J jnl
Improved protein model quality assessment by integrating sequential and pairwise features using deep learning.
Bioinform.
Xiaoyang Jing, Jinbo Xu
2021 J jnl
Improved protein structure prediction by deep learning irrespective of co-evolution information.
Nat. Mach. Intell.
Jinbo Xu, Matthew McPartlon, Jin Li
2021 J jnl
ORFLine: a bioinformatic pipeline to prioritize small open reading frames identifies candidate secreted small proteins from lymphocytes.
Bioinform.
Fengyuan Hu, Jia Lu, Louise S. Matheson, Manuel D. Díaz-Muñoz, Alexander Saveliev, Jinbo Xu, Martin Turner
2021 A conf
PALM: Probabilistic area loss Minimization for Protein Sequence Alignment.
UAI
Fan Ding, Nan Jiang, Jianzhu Ma, Jian Peng, Jinbo Xu, Yexiang Xue
2021 J jnl
Study of real-valued distance prediction for protein structure prediction with deep learning.
Bioinform.
Jin Li, Jinbo Xu
2021 A* conf
XOR-CD: Linearly Convergent Constrained Structure Generation.
ICML
Fan Ding, Jianzhu Ma, Jinbo Xu, Yexiang Xue
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 J jnl
Automated inference of Boolean models from molecular interaction maps using CaSQ.
Bioinform.
Sara Sadat Aghamiri, Vidisha Singh, Aurélien Naldi, Tomás Helikar, Sylvain Soliman, Anna Niarakis, Jinbo Xu
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 — 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
2019 B conf
stance-Based Protein Folding Powered by Deep Learning.
RECOMB
Jinbo Xu
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 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
Predicting protein-protein interactions through sequence-based deep learning.
Bioinform.
Somaye Hashemifar, Behnam Neyshabur, Aly A. Khan, Jinbo Xu
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
2017 J jnl
A Sparse Learning Framework for Joint Effect Analysis of Copy Number Variants.
IEEE ACM Trans. Comput. Biol. Bioinform.
Zhiyong Wang, Benika Hall, Jinbo Xu, Xinghua Shi
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
Folding Large Proteins by Ultra-Deep Learning.
BCB
Jinbo Xu
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
Predicting membrane protein contacts from non-membrane proteins by deep transfer learning.
CoRR
Zhen Li, Sheng Wang, Yizhou Yu, Jinbo Xu
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
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 B conf
Joint Alignment of Multiple Protein-Protein Interaction Networks via Convex Optimization.
RECOMB
Somaye Hashemifar, Qixing Huang, Jinbo Xu
2016 J jnl
Joint Alignment of Multiple Protein-Protein Interaction Networks via Convex Optimization.
J. Comput. Biol.
Somaye Hashemifar, Qixing Huang, Jinbo Xu
2016 J jnl
Joint alignment of multiple protein-protein interaction networks via convex optimization.
CoRR
Somaye Hashemifar, Qixing Huang, Jinbo Xu
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
ModuleAlign: module-based global alignment of protein-protein interaction networks.
Bioinform.
Somaye Hashemifar, Jianzhu Ma, Hammad Naveed, Stefan Canzar, Jinbo Xu
2016 J jnl
Network Inference by Learned Node-Specific Degree Prior.
CoRR
Qingming Tang, Lifu Tu, Weiran Wang, Jinbo Xu
2016 J jnl
RaptorX-Property: a web server for protein structure property prediction.
Nucleic Acids Res.
Sheng Wang, Wei Li, Shiwang Liu, Jinbo Xu
2015 C conf
A low-latency fine-grained dynamic shared cache management scheme for chip multi-processor.
IPCCC
Jinbo Xu, Weixia Xu, Zhengbin Pang
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 Misc conf
Classification of Tiangong-1 hyperspectral remote sensing image via contextual sparse coding.
ICMLC
Qi Lv, Yong Dou, Xin Niu, Jiaqing Xu, Jinbo Xu
2015 J jnl
Disease Gene Prioritization Using Network and Feature.
J. Comput. Biol.
Bingqing Xie, Gady Agam, Sandhya Balasubramanian, Jinbo Xu, T. Conrad Gilliam, Natalia Maltsev, Daniela Börnigen
2015 — conf
Exact Hybrid Covariance Thresholding for Joint Graphical Lasso.
ECML/PKDD (2)
Qingming Tang, Chao Yang, Jian Peng, Jinbo Xu
2015 J jnl
Exact Hybrid Covariance Thresholding for Joint Graphical Lasso.
CoRR
Qingming Tang, Chao Yang, Jian Peng, Jinbo Xu
2015 A conf
Inferring Block Structure of Graphical Models in Exponential Families.
AISTATS
Siqi Sun, Hai Wang, Jinbo Xu
2015 — conf
Joint inference of tissue-specific networks with a scale free topology.
BIBM
Somaye Hashemifar, Behnam Neyshabur, Jinbo Xu
2015 J jnl
Learning Scale Free Network by Node Specific Degree Prior.
CoRR
Qingming Tang, Siqi Sun, Chao Yang, Jinbo Xu
2015 A* conf
Learning Scale-Free Networks by Dynamic Node Specific Degree Prior.
ICML
Qingming Tang, Siqi Sun, Jinbo Xu
2015 — conf
Learning structured densities via infinite dimensional exponential families.
NIPS
Siqi Sun, Mladen Kolar, Jinbo Xu
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
2015 A conf
Structure Learning Constrained by Node-Specific Degree Distribution.
UAI
Jianzhu Ma, Feng Zhao, Jinbo Xu
2015 J jnl
Urban Land Use and Land Cover Classification Using Remotely Sensed SAR Data through Deep Belief Networks.
J. Sensors
Qi Lv, Yong Dou, Xin Niu, Jiaqing Xu, Jinbo Xu, Fei Xia
2014 A conf
Adaptive Variable Clustering in Gaussian Graphical Models.
AISTATS
Siqi Sun, Yuancheng Zhu, Jinbo Xu
2014 — conf
CNVnet: combining sparse learning and biological networks to capture joint effect of copy number variants.
BCB
Zhiyong Wang, Jinbo Xu, Xinghua Shi
2014 J jnl
FPGA Implementation of a Special-Purpose VLIW Structure for Double-Precision Elementary Function.
ACM Trans. Reconfigurable Technol. Syst.
Yuanwu Lei, Lei Guo, Yong Dou, Sheng Ma, Jinbo Xu
2014 J jnl
Finding Alternative Expression Quantitative Trait Loci by Exploring Sparse Model Space.
J. Comput. Biol.
Zhiyong Wang, Jinbo Xu, Xinghua Shi
2014 J jnl
HubAlign: an accurate and efficient method for global alignment of protein-protein interaction networks.
Bioinform.
Somaye Hashemifar, Jinbo Xu
2014 C conf
Low-latency last-level cache structure based on grouped cores in Chip Multi-Processor.
IPCCC
Jinbo Xu, Weixia Xu, Kefei Wang, Zhengbin Pang
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 — conf
Achieving Predictable Performance in SMT Processors by Instruction Fetch Policy.
NCCET
Caixia Sun, Yongwen Wang, Jinbo Xu
2013 — conf
An Effective Framework of Program Optimization for High Performance Computing.
NCCET
Pingjing Lu, Bao Li, Zhengbin Pang, Ying Zhang, Shaogang Wang, Jinbo Xu, Yan Liu
2013 — conf
Direction-Optimizing Breadth-First Search on CPU-GPU Heterogeneous Platforms.
HPCC/EUC
Dan Zou, Yong Dou, Qiang Wang, Jinbo Xu, Baofeng Li
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
From WiFi to WiMAX: Efficient GPU-based Parameterized Transceiver across Different OFDM Protocols.
KSII Trans. Internet Inf. Syst.
Rongchun Li, Yong Dou, Jie Zhou, Baofeng Li, Jinbo Xu
2013 J jnl
Predicting protein contact map using evolutionary and physical constraints by integer programming (extended version).
CoRR
Zhiyong Wang, Jinbo Xu
2013 J jnl
Predicting protein contact map using evolutionary and physical constraints by integer programming.
Bioinform.
Zhiyong 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
2013 J jnl
VLIW coprocessor for IEEE-754 quadruple-precision elementary functions.
ACM Trans. Archit. Code Optim.
Yuanwu Lei, Yong Dou, Lei Guo, Jinbo Xu, Jie Zhou, Yazhuo Dong, Hongjian Li
2012 A conf
A Two-Graph Guided Multi-task Lasso Approach for eQTL Mapping.
AISTATS
Xiaohui Chen, Xinghua Shi, Xing Xu, Zhiyong Wang, Ryan Mills, Charles Lee, Jinbo Xu
2012 J jnl
A conditional neural fields model for protein threading.
Bioinform.
Jianzhu Ma, Jian Peng, Sheng Wang, Jinbo Xu
2012 A conf
Approximate Inference by Intersecting Semidefinite Bound and Local Polytope.
AISTATS
Jian Peng, Tamir Hazan, Nathan Srebro, Jinbo Xu
2011 C conf
A Parallel Processing Scheme for Large-Size Sliding-Window Applications.
HPCC
Weixia Xu, Jinbo Xu, Zhengbin Pang
2011 J jnl
A conditional random fields method for RNA sequence-structure relationship modeling and conformation sampling.
Bioinform.
Zhiyong 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
Finding Nearly Optimal GDT Scores.
J. Comput. Biol.
Shuai Cheng Li, Dongbo Bu, Jinbo Xu, Ming Li
2010 J jnl
A Probabilistic and Continuous Model of Protein Conformational Space for Template-Free Modeling.
J. Comput. Biol.
Feng Zhao, Jian Peng, Joe DeBartolo, Karl F. Freed, Tobin R. Sosnick, Jinbo Xu
2010 J jnl
Fragment-free approach to protein folding using conditional neural fields.
Bioinform.
Feng Zhao, Jian Peng, Jinbo Xu
2010 J jnl
Low-homology protein threading.
Bioinform.
Jian Peng, Jinbo Xu
2010 — conf
Protein 8-class secondary structure prediction using Conditional Neural Fields.
BIBM
Zhiyong Wang, Feng Zhao, Jian Peng, Jinbo Xu
2010 J jnl
Struct2Net: a web service to predict protein-protein interactions using a structure-based approach.
Nucleic Acids Res.
Rohit Singh, Daniel Park, Jinbo Xu, Raghavendra Hosur, Bonnie Berger
2009 B conf
A Probabilistic Graphical Model for Ab Initio Folding.
RECOMB
Feng Zhao, Jian Peng, Joe DeBartolo, Karl F. Freed, Tobin R. Sosnick, Jinbo Xu
2009 J jnl
A Reconfigurable Architecture for Rotation Invariant Multi-View Face Detection Based on a Novel Two-Stage Boosting Method.
EURASIP J. Adv. Signal Process.
Jinbo Xu, Yong Dou, Zhengbin Pang
2009 B conf
Boosting Protein Threading Accuracy.
RECOMB
Jian Peng, Jinbo Xu
2009 — conf
Conditional Neural Fields.
NIPS
Jian Peng, Liefeng Bo, Jinbo Xu
2009 B conf
FPGA accelerating three QR decomposition algorithms in the unified pipelined framework.
FPL
Yong Dou, Jie Zhou, Xiaoyang Chen, Yuanwu Lei, Jinbo Xu
2009 J jnl
Finding compact structural motifs.
Theor. Comput. Sci.
Dongbo Bu, Ming Li, Shuai Cheng Li, Jianbo Qian, Jinbo Xu
2009 — conf
Implementation of Rotation Invariant Multi-View Face Detection on FPGA.
APPT
Jinbo Xu, Yong Dou, Yuxing Tang, Xiaodong Wang
2009 J jnl
Predicting Local Quality of a Sequence-Structure Alignment.
J. Bioinform. Comput. Biol.
Xin Gao, Jinbo Xu, Shuai Cheng Li, Ming Li
2008 A conf
Designing succinct structural alphabets.
ISMB
Shuai Cheng Li, Dongbo Bu, Xin Gao, Jinbo Xu, Ming Li
2008 C conf
Double Precision Hybrid-Mode Floating-Point FPGA CORDIC Co-processor.
HPCC
Jie Zhou, Yong Dou, Yuanwu Lei, Jinbo Xu, Yazhuo Dong
2008 B conf
Finding Largest Well-Predicted Subset of Protein Structure Models.
CPM
Shuai Cheng Li, Dongbo Bu, Jinbo Xu, Ming Li
2008 Misc conf
Global Alignment of Multiple Protein Interaction Networks.
Pacific Symposium on Biocomputing
Rohit Singh, Jinbo Xu, Bonnie Berger
2008 J jnl
Global alignment of multiple protein interaction networks with application to functional orthology detection.
Proc. Natl. Acad. Sci. USA
Rohit Singh, Jinbo Xu, Bonnie Berger
2008 A* conf
Graph algorithms for biological systems analysis.
SODA
Bonnie Berger, Rohit Singh, Jinbo Xu
2008 — conf
Hardware BLAST Algorithms with Multi-seeds Detection and Parallel Extension.
ARC
Fei Xia, Yong Dou, Jinbo Xu
2008 — conf
Multi-access memory architecture for image applications with multiple interested regions.
APCCAS
Jinbo Xu, Yong Dou, Jie Zhou
2008 B conf
Rapid and Accurate Protein Side Chain Prediction with Local Backbone Information.
RECOMB
Jing Zhang, Xin Gao, Jinbo Xu, Ming Li
2008 — conf
Rectangularly Multi-Module Memory System with Table-Based Dynamic Addressing Scheme.
NAS
Jinbo Xu, Yong Dou, Jie Zhou
2007 J jnl
A Parameterized Algorithm for Protein Structure Alignment.
J. Comput. Biol.
Jinbo Xu, Feng Jiao, Bonnie Berger
2007 C conf
FPGA Accelerating Algorithms of Active Shape Model in People Tracking Applications.
DSD
Jinbo Xu, Yong Dou, Junfeng Li, Xingming Zhou, Qiang Dou
2007 — conf
FPGA-Accelerated Active Shape Model for Real-Time People Tracking.
Asia-Pacific Computer Systems Architecture Conference
Yong Dou, Jinbo Xu
2007 B conf
Finding Compact Structural Motifs.
CPM
Jianbo Qian, Shuai Cheng Li, Dongbo Bu, Ming Li, Jinbo Xu
2007 B conf
Pairwise Global Alignment of Protein Interaction Networks by Matching Neighborhood Topology.
RECOMB
Rohit Singh, Jinbo Xu, Bonnie Berger
2007 — conf
Solving the contact map overlap problem via tree decomposition and a DEE-like pruning strategy.
CDC
Jinbo Xu
2006 B conf
A Parameterized Algorithm for Protein Structure Alignment.
RECOMB
Jinbo Xu, Feng Jiao, Bonnie Berger
2006 J jnl
Fast and accurate algorithms for protein side-chain packing.
J. ACM
Jinbo Xu, Bonnie Berger
2006 J jnl
Optimizing Multiple Spaced Seeds for Homology Search.
J. Comput. Biol.
Jinbo Xu, Daniel G. Brown, Ming Li, Bin Ma
2006 — conf
Robust and real-time automatic target recognition using partial hausdorff distance measure on reconfigurable hardware.
FPT
Jinbo Xu, Yong Dou
2006 Misc conf
Struct2Net: Integrating Structure into Protein-Protein Interaction Prediction.
Pacific Symposium on Biocomputing
Rohit Singh, Jinbo Xu, Bonnie Berger
2005 — conf
A Tree-Decomposition Approach to Protein Structure Prediction.
CSB
Jinbo Xu, Feng Jiao, Bonnie Berger
2005 B conf
Consensus fold recognition by predicted model quality.
APBC
Jinbo Xu, Libo Yu, Ming Li
2005 Misc conf
Discovering Sequence-Structure Motifs from Protein Segments and Two Applications.
Pacific Symposium on Biocomputing
Thomas Tang, Jinbo Xu, Ming Li
2005 J jnl
Fold Recognition by Predicted Alignment Accuracy.
IEEE ACM Trans. Comput. Biol. Bioinform.
Jinbo Xu
2005 B conf
Rapid Protein Side-Chain Packing via Tree Decomposition.
RECOMB
Jinbo Xu
2004 B conf
Optimizing Multiple Spaced Seeds for Homology Search.
CPM
Jinbo Xu, Daniel G. Brown, Ming Li, Bin Ma
2004 J jnl
Protein Threading by Linear Programming: Theoretical Analysis and Computational Results.
J. Comb. Optim.
Jinbo Xu, Ming Li, Ying Xu
2003 J jnl
Approximation algorithms for NMR spectral peak assignment.
Theor. Comput. Sci.
Zhi-Zhong Chen, Tao Jiang, Guo-Hui Lin, Jianjun Wen, Dong Xu, Jinbo Xu, Ying Xu
2003 Misc conf
Protein Threading by Linear Programming.
Pacific Symposium on Biocomputing
Jinbo Xu, Ming Li, Guo-Hui Lin, Dongsup Kim, Ying Xu
2003 J jnl
Raptor: Optimal Protein Threading by Linear Programming.
J. Bioinform. Comput. Biol.
Jinbo Xu, Ming Li, Dongsup Kim, Ying Xu
2003 C conf
Speedup LP Approach to Protein Threading via Graph Reduction.
WABI
Jinbo Xu