Ying Xu - researchr alias

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2011

2010

GolgiP: prediction of Golgi-resident proteins in plantsWen-Chi Chou, Yanbin Yin, Ying Xu. bioinformatics, 26(19):2464-2465, 2010. [doi]

Physical Implementation of the 1GHz Godson-3 Quad-Core MicroprocessorBao-Xia Fan, Liang Yang, Jiang-Mei Wang, Ru Wang, Bin Xiao, Ying Xu, Dong Liu, Ji-Ye Zhao. jcst, 25(2):192-199, 2010. [doi]

The nature of noise in linguistic corporaRandy Goebel, Shane Bergsma, Ying Xu, Christoph Ringlstetter, Mi-Young Kim. and 2010: 1-2 [doi]

Retransmission != repeat: simple retransmission permutation can resolve overlapping channel collisionsErran L. Li, Kun Tan, Harish Viswanathan, Ying Xu, Yang Richard Yang. mobicom 2010: 281-292 [doi]

Using Kernel Discriminant Analysis and 2DGabor Local Features Fusion for Face RecognitionKeZheng Lin, Ying Xu, Yuan Zhong. jdcta, 4(8):232-241, 2010. [doi]

::::In-silico ::::prediction of blood-secretory human proteins using a ranking algorithmQi Liu, Juan Cui, Qiang Yang, Ying Xu. bmcbi, 11:250, 2010. [doi]

An improved Particle Swarm Optimization algorithmPing Luo, Ying Xu, Lihai Yao, Yaolin Lou. icnc 2010: 2576-2580 [doi]

Sorting Genomes by Reciprocal Translocations, Insertions, and DeletionsXingqin Qi, Guojun Li, Shuguang Li, Ying Xu. tcbb, 7(2):365-374, 2010. [doi]

Foreword: Advances in Computational Systems BioinformaticsYing Xu, Peter W. Markstein. jbcb, 8(2), 2010. [doi]

On the Performance Evaluation of Quasi-Cyclic LDPC Codes with Arbitrary PuncturingYing Xu, Yuejun Wei, Wen Chen. vtc 2010: 1-5 [doi]

Service level differentiation in multi-robots controlYing Xu, Tinglong Dai, Katia P. Sycara, Michael Lewis. iros 2010: 2224-2230 [doi]

Physical Design Methodology for Godson-2G MicroprocessorJi-Ye Zhao, Dong Liu, Dan-Dan Huan, Meng-Hao Su, Bin Xiao, Ying Xu, Feng Shi, Chen Chen, Song Wang. jcst, 25(2):225-231, 2010. [doi]

cBar: a computer program to distinguish plasmid-derived from chromosome-derived sequence fragments in metagenomics dataFengfeng Zhou, Ying Xu. bioinformatics, 26(16):2051-2052, 2010. [doi]

2009

A polynomial-time approximation scheme for embedding hypergraph in a cycleGuojun Li, Xiaotie Deng, Ying Xu. talg, 5(2), 2009. [doi]

A Universal operon Predictor for prokaryotic genomesGuojun Li, Dongsheng Che, Ying Xu. jbcb, 7(1):19-38, 2009. [doi]

Analyses of domains and domain fusions in human proto-oncogenesQi Liu, Jinling Huang, Huiqing Liu, Ping Wan, Xiuzi Ye, Ying Xu. bmcbi, 10, 2009. [doi]

Detect the Different Isoforms Using GeneChip Human Exon 1.0 ST ArraysMi-Chia Ma, Hsiao-Fang Lin, Ying Xu. bmei 2009: 1-5 [doi]

DOOR: a database for prokaryotic operonsFenglou Mao, PhuongAn Dam, Jacky Chou, Victor Olman, Ying Xu. nar, 37(Database-Issue):459-463, 2009. [doi]

Parallel Clustering Algorithm for Large Data Sets with Applications in BioinformaticsVictor Olman, Fenglou Mao, Hongwei Wu, Ying Xu. tcbb, 6(2):344-352, 2009. [doi]

A Variable Neighborhood Descent Search Algorithm for Delay-Constrained Least-Cost Multicast RoutingRong Qu, Ying Xu, Graham Kendall. lion 2009: 15-29 [doi]

::::De novo:::: computational prediction of non-coding RNA genes in prokaryotic genomesThao T. Tran, Fengfeng Zhou, Sarah Marshburn, Mark Stead, Sidney R. Kushner, Ying Xu. bioinformatics, 25(22):2897-2905, 2009. [doi]

Prediction in Dynamic SDRAM Controller PoliciesYing Xu, Aabhas S. Agarwal, Brian T. Davis. samos 2009: 128-138 [doi]

Computational Challenges in Deciphering Genomic Structures of BacteriaYing Xu. jcst, 25(1):53-70, 2009. [doi]

PrefaceYing Xu, Ming Li, Tao Jiang. jcst, 25(1):1-2, 2009. [doi]

Scientific Application Based Performance on Magic CubeYing Xu, D. D. Zhang, Lei Xu. cnhpca 2010: 485-490 [doi]

Block Precoding Based ICI Mitigation Technique for OFDM SystemYikui Zhai, Ying Xu. paccs 2009: 58-61 [doi]

Research on Operating Parameters and Energy Consumption of Cold Store Based on Rough Set TheoryJianyi Zhang, Ying Xu, Fei Chen. fskd 2009: 207-210 [doi]

Large-Scale Analyses of Glycosylation in CellulasesFengfeng Zhou, Victor Olman, Ying Xu. gpb, 7(4):194-199, 2009. [doi]

2008

PFP: A Computational Framework for Phylogenetic Footprinting in Prokaryotic GenomesDongsheng Che, Guojun Li, Shane T. Jensen, Jun S. Liu, Ying Xu. isbra 2008: 110-121 [doi]

Computational prediction of human proteins that can be secreted into the bloodstreamJuan Cui, Qi Liu, David Puett, Ying Xu. bioinformatics, 24(20):2370-2375, 2008. [doi]

Improving the Performance of protein Threading Using Insertion/Deletion Frequency ArraysKyle Ellrott, Jun-tao Guo, Victor Olman, Ying Xu. jbcb, 6(3):585-602, 2008. [doi]

Protein Structure-structure Alignment with Discrete FrÉchet DistanceMinghui Jiang, Ying Xu, Binhai Zhu. jbcb, 6(1):51-64, 2008. [doi]

An Algorithm for Simultaneous Backbone Threading and Side-Chain PackingGuojun Li, Zhijie Liu, Jun-tao Guo, Ying Xu. algorithmica, 51(4):435-450, 2008. [doi]

RNACluster: An integrated tool for RNA secondary structure comparison and clusteringQi Liu, Victor Olman, Huiqing Liu, Xiuzi Ye, Shilun Qiu, Ying Xu. jcc, 29(9):1517-1526, 2008. [doi]

On application of directons to functional classification of genes in prokaryotesHongwei Wu, Fenglou Mao, Victor Olman, Ying Xu. CANDC, 32(3):176-184, 2008. [doi]

Reconstruction of the Infection Curve for SARS Epidemic in Beijing, China Using a Back-Projection MethodPaul S. F. Yip, K. F. Lam, Ying Xu, P. H. Chau, Jing Xu, Wenhu Chang, Yingchun Peng, Zejun Liu, Xueqin Xie, H. Y. Lau. cssc, 37(2):425-433, 2008. [doi]

Barcodes for genomes and applicationsFengfeng Zhou, Victor Olman, Ying Xu. bmcbi, 9, 2008. [doi]

2007

Operon Prediction in Microbial Genomes Using Decision Tree ApproachDongsheng Che, Jizhen Zhao, Liming Cai, Ying Xu. cibcb 2007: 135-142 [doi]

Protein Structure-Structure Alignment with Discrete Fr echet DistanceMinghui Jiang, Ying Xu, Binhai Zhu. apbc 2007: 131-141 [doi]

An Algorithm for Simultaneous Backbone Threading and Side-Chain PackingGuojun Li, Zhijie Liu, Jun-tao Guo, Ying Xu. algorithmica, 48(4):329-342, 2007. [doi]

Prediction of ::::cis::::-Regulatory Elements: from High-Information Content Analysis to Motif IdentificationGuojun Li, Jizhu Lu, Victor Olman, Ying Xu. jbcb, 5(4):817-838, 2007. [doi]

An Algorithm for Hierarchical Classification of Genes of Prokaryotic GenomesHongwei Wu, Fenglou Mao, Victor Olman, Ying Xu. isbra 2007: 551-563 [doi]

A Novel Integrated Cell-Based Biosensor for Extracellular Electrophysiological MonitoringYing Xu, Hui Yu, Hua Cai, Qingjun Liu, Ping Wang. ijia, 4(3):193-204, 2007. [doi]

2006

A Complex Applications Framework Supporting Tolerant Dynamic Vehicle DispatchingIlham Benyahia, Jean-Yves Potvin, Ying Xu. aiccsa 2006: 875-881 [doi]

Structure Prediction of Helical Transmembrane Proteins at Two Length ScalesZhong Chen, Ying Xu. jbcb, 4(2):317-334, 2006. [doi]

libSRES: a C library for stochastic ranking evolution strategy for parameter estimationXinglai Ji, Ying Xu. bioinformatics, 22(1):124-126, 2006. [doi]

DigitalTree: A Tool for Displaying Biological Data in Tree StructureRobin Kramer, Victor Olman, Ying Xu, Dong Xu. iccS 2006: 855-862 [doi]

Fast De novo Peptide Sequencing and Spectral Alignment via Tree DecompositionChunmei Liu, Yinglei Song, Bo Yan, Ying Xu, Liming Cai. psb 2006: 255-266 [doi]

Peptide sequence tag-based blind identification of post-translational modifications with point process modelChunmei Liu, Bo Yan, Yinglei Song, Ying Xu, Liming Cai. ismb 2006: 307-313 [doi]

Gene Expression Data Analysis in Subtypes of Ovarian Cancer Using Covariance AnalysisVictor Olman, Chindo Hicks, Peng Wang, Ying Xu. jbcb, 4(5):999-1014, 2006. [doi]

Vehicle routing and scheduling with dynamic travel timesJean-Yves Potvin, Ying Xu, Ilham Benyahia. cor, 33:1129-1137, 2006. [doi]

Efficient Parameterized Algorithms for Biopolymer Structure-Sequence AlignmentYinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai. tcbb, 3(4):423-432, 2006. [doi]

Design and Performance Evaluation of a Proxy-based Java Rewriting Security SystemYougang Song, Ying Xu, Brett D. Fleisch. icdcs 2006: 11 [doi]

Understanding microbial genomic structures and applications to biological pathway inferenceZhengchang Su, Fenglou Mao, Hongwei Wu, PhuongAn Dam, Xin Chen, Tao Jiang, Victor Olman, Brian Palenik, Ying Xu. grc 2006: 23-24 [doi]

Researching on The Method and Technology of Creating Temporal Categories for an Ontology of TimeYing Xu, Fu-yuan Xu. cimca 2006: 264 [doi]

A System for Project Distribution Based on the Semantic Matching MethodYing Xu, Fu-yuan Xu, Sheng-qi Li. cimca 2006: 187 [doi]

Research on Context Modeling Based on OntologyYing Xu, Fu-yuan Xu. cimca 2006: 188 [doi]

SUMOsp: a web server for sumoylation site predictionYu Xue, Fengfeng Zhou, Chuanhai Fu, Ying Xu, Xuebiao Yao. nar, 34(Web-Server-Issue):254-257, 2006. [doi]

A Point-Process Model for Rapid Identification of Post-Translational ModificationsBo Yan, Tong Zhou, Peng Wang, Zhijie Liu, Vincent A. Emanuele II, Victor Olman, Ying Xu. psb 2006: 327-338 [doi]

CSS-Palm: palmitoylation site prediction with a clustering and scoring strategy (CSS)Fengfeng Zhou, Yu Xue, Xuebiao Yao, Ying Xu. bioinformatics, 22(7):894-896, 2006. [doi]

2005

More Reliable Protein NMR Peak Assignment via Improved 2-Interval SchedulingZhi-Zhong Chen, Guohui Lin, Romeo Rizzi, Jianjun Wen, Dong Xu, Ying Xu, Tao Jiang. jcb, 12(2):129-146, 2005. [doi]

Multi-Scale Hierarchical Structure Prediction of Helical Transmembrane ProteinsZhong Chen, Ying Xu. csb 2005: 203-207 [doi]

Improving Operon Prediction in E. coliPhuongAn Dam, Victor Olman, Ying Xu. csb 2005: 69-70 [doi]

The Probability Distribution for a Random Match between an Experimental-theoretical Spectral Pair in Tandem Mass SpectrometryTema Fridman, Jane Razumovskaya, Nathan Verberkmoes, Gregory B. Hurst, Vladimir Protopopescu, Ying Xu. jbcb, 3(2):455-476, 2005. [doi]

MPSS: an integrated database system for surveying a set of proteinsPei Hao, Wei-Zhong He, Yin Huang, Liang-Xiao Ma, Ying Xu, Hong Xi, Chuan Wang, Bo-Shu Liu, Jin-Miao Wang, Yi-Xue Li, Yang Zhong. bioinformatics, 21(9):2142-2143, 2005. [doi]

On Connected [::::g, f:::: +1]-Factors in GraphsGuojun Li, Ying Xu, Chuanping Chen, Zhenhong Liu. combinatorica, 25(4):393-405, 2005. [doi]

PROMOCO: a New Program for Prediction of cis Regulatory Elements: From High-Information Content Analysis to Clique IdentificationGuojun Li, Jizhu Lu, Victor Olman, Ying Xu. csb 2005: 35-36 [doi]

Clustering Gene Expression Data with Kernel Principal ComponentsZhenqiu Liu, Dechang Chen, Halima Bensmail, Ying Xu. jbcb, 3(2):303-316, 2005. [doi]

Logistic support vector machines and their application to gene expression dataZhenqiu Liu, Dechang Chen, Ying Xu, Jian Liu. ijbra, 1(2):169-182, 2005. [doi]

Efficient Parameterized Algorithm for Biopolymer Structure-Sequence AlignmentYinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai. wabi 2005: 376-388 [doi]

Intrusion Detection Combining Multiple Decision Trees by Fuzzy logicJunfeng Tian, Yue Fu, Ying Xu, Jian-ling Wang. pdcat 2005: 256-258 [doi]

Structural genomics analysis of alternative splicing and its application in modeling structures of alternatively spliced variantsPeng Wang, Bo Yan, Jun-tao Guo, Chindo Hicks, Ying Xu. csb 2005: 217 [doi]

Accurate Prediction of Orthologous Gene Groups in MicrobesHongwei Wu, Fenglou Mao, Victor Olman, Ying Xu. csb 2005: 73-79 [doi]

PrefaceYing Xu, Liming Cai, Zhiping Weng. jcst, 20(4):433-433, 2005. [doi]

Individual QoS versus aggregate QoS: a loss performance studyYing Xu, Roch Guérin. ton, 13(2):370-383, 2005. [doi]

On the robustness of router-based denial-of-service (DoS) defense systemsYing Xu, Roch Guérin. ccr, 35(3):47-60, 2005. [doi]

PRIME: A Mass Spectrum Data Mining Tool for ::::De Nova:::: Sequencing and PTMs IdentificationBo Yan, Youxing Qu, Fenglou Mao, Victor Olman, Ying Xu. jcst, 20(4):483-490, 2005. [doi]

A graph-theoretic approach for the separation of b and y ions in tandem mass spectraBo Yan, Chongle Pan, Victor Olman, Robert L. Hettich, Ying Xu. bioinformatics, 21(5):563-574, 2005. [doi]

2004

In Silico Construction of the Carbon Fixation Pathway in Synechococcus sp. WH8102PhuongAn Dam, Zhengchang Su, Victor Olman, Ying Xu. csb 2004: 614-615 [doi]

PROSPECT-PSPP: an automatic computational pipeline for protein structure predictionJun-tao Guo, Kyle Ellrott, Won Jae Chung, Dong Xu, Sergei Passovets, Ying Xu. nar, 32(Web-Server-Issue):522-525, 2004.

Molecular Modeling of Full-Length OxyR from Shewanella oneidensis MR-1 and Molecular Dynamics Studies of the Activation DomainJun-tao Guo, Ying Xu. csb 2004: 708-709 [doi]

Pathway Mapping with Operon Information: An Integer-Programming MethodFenglou Mao, Zhengchang Su, Victor Olman, David Chuang, Ying Xu. csb 2004: 642-643 [doi]

Mapping of Microbial Pathways through Constrained Mapping of Orthologous GenesVictor Olman, Hanchuan Peng, Zhengchang Su, Ying Xu. csb 2004: 363-370 [doi]

CUBIC: Search for Binding SitesVictor Olman, Jizhu Lu, PhuongAn Dam, Zhengchang Su, Ying Xu. csb 2004: 666-667 [doi]

Protein Fold Recognition Through Application of Residual Dipolar Coupling DataYouxing Qu, Jun-tao Guo, Victor Olman, Ying Xu. psb 2004: 459-470 [doi]

Computational Construction of Nitrogen Assimilation Pathway in Cyanobacteria Synechococcus sp. WH8102Zhengchang Su, PhuongAn Dam, X. Chen, Victor Olman, Tao Jiang, Ying Xu. csb 2004: 640-641 [doi]

Computational Inference of Transcription Regulation and Response Networks in Synechococcus sp. WH8102Zhengchang Su, PhuongAn Dam, Victor Olman, Ying Xu. bibe 2004: 5-8 [doi]

Exploring the performance benefits of end-to-end path switchingShu Tao, Kuai Xu, Ying Xu, Teng Fei, Lixin Gao, Roch Guérin, James F. Kurose, Donald F. Towsley, Zhi-Li Zhang. sigmetrics 2004: 418-419 [doi]

Exploring the Performance Benefits of End-to-End Path SwitchingShu Tao, Kuai Xu, Ying Xu, Teng Fei, Lixin Gao, Roch Guérin, James F. Kurose, Donald F. Towsley, Zhi-Li Zhang. icnp 2004: 304-315 [doi]

Structural Analysis of FGFR1 Kinase Activation through Molecular Dynamics SimulationPeng Wang, Zhengchang Su, Jun-tao Guo, Ying Xu. csb 2004: 700-701 [doi]

A Knowledge Base for Computational Pathway ReconstructionPeng Wang, Zhengchang Su, PhuongAn Dam, Ying Xu. csb 2004: 612-613 [doi]

NFS-cc: tuning NFS for concurrent read sharingYing Xu, Brett D. Fleisch. ijhpcn, 1(4):203-213, 2004. [doi]

Model Checking for a First-Order Temporal Logic Using Multiway Decision Graphs (MDGs)Ying Xu, Xiaoyu Song, Eduard Cerny, Otmane Aït Mohamed. cj, 47(1):71-84, 2004. [doi]

Protein Threading by Linear Programming: Theoretical Analysis and Computational ResultsJinbo Xu, Ming Li, Ying Xu. jco, 8(4):403-418, 2004. [doi]

Separation of Ion Types in Tandem Mass Spectrometry Data Interpretation - A Graph-Theoretic ApproachBo Yan, Chongle Pan, Victor Olman, Robert L. Hettich, Ying Xu. csb 2004: 236-244 [doi]

2003

Computational Assignment of Protein Backbone Nmr Peaks Byefficient Bounding and FilteringGuohui Lin, Dong Xu, Zhi-Zhong Chen, Tao Jiang, Jianjun Wen, Ying Xu. jbcb, 1(2):387-410, 2003. [doi]

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