Ying Xu

发表

An Investigation of Errors in Fluoroscopic Navigation for Robot-Assisted Orthopedic Surgery

Hongpeng Liu, Ying Xu, Peifu Tang, 2018, ICBBB.

Large-Scale Analyses of Glycosylation in Cellulases

Ying Xu, Fengfeng Zhou, Victor Olman, 2009, Genom. Proteom. Bioinform..

Parallel Clustering Algorithm for Large Data Sets with Applications in Bioinformatics

Ying Xu, Hongwei Wu, Fenglou Mao, 2009, IEEE/ACM Transactions on Computational Biology & Bioinformatics.

A polynomial-time algorithm for a class of protein threading problems

Ying Xu, Edward C. Uberbacher, 1996, Comput. Appl. Biosci..

In silico construction of the carbon fixation pathway in Synechococcus sp. WH8102

Ying Xu, Victor Olman, Zhengchang Su, 2004, Proceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004..

A generalized threading model using integer programming that allows for secondary structure element deletion.

Ying Xu, Victor Olman, Kyle Ellrott, 2006, Genome informatics. International Conference on Genome Informatics.

SeqTU: A Web Server for Identification of Bacterial Transcription Units

Ying Xu, Wen-Chi Chou, Xin Chen, 2017, Scientific Reports.

Foreword: Advances in Computational Systems Bioinformatics

Ying Xu, Peter W. Markstein, 2010, J. Bioinform. Comput. Biol..

Molecular modeling of full-length OxyR from Shewanella oneidensis MR-1 and molecular dynamics studies of the activation domain

Ying Xu, Jun-tao Guo, 2004, Proceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004..

Protein Threading by Linear Programming

Ying Xu, Guohui Lin, Ming Li, 2003, Pacific Symposium on Biocomputing.

DigitalTree: A Tool for Displaying Biological Data in Tree Structure

Ying Xu, Dong Xu, Victor Olman, 2006, International Conference on Computational Science.

A graph-theoretic approach for the separation of b and y ions in tandem mass spectra

Bo Yan, Ying Xu, Victor Olman, 2005, Bioinform..

Pathway mapping with operon information: an integer-programming method

Ying Xu, Fenglou Mao, Victor Olman, 2004, Proceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004..

PRIME: A Mass Spectrum Data Mining Tool for De Nova Sequencing and PTMs Identification

Bo Yan, Ying Xu, Fenglou Mao, 2005, Journal of Computer Science and Technology.

Fast Algorithms for Transversal Matroid Intersection Problems

Ying Xu, Harold N. Gabow, H. Gabow, 1994, ISAAC.

Editorial from the New Editor-in-Chief

Ying Xu, 2013, TCBB.

DOOR 2.0: presenting operons and their functions through dynamic and integrated views

Xin Chen, Ying Xu, Jincai Yang, 2013, Nucleic Acids Res..

IsoTree: A New Framework for de novo Transcriptome Assembly from RNA-seq Reads

Jin Zhao, Ying Xu, Daming Zhu, 2018, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

SUMOsp: a web server for sumoylation site prediction

Yu Xue, Ying Xu, Fengfeng Zhou, 2006, Nucleic Acids Res..

Computational prediction of human proteins that can be secreted into the bloodstream

Ying Xu, Qi Liu, Juan Cui, 2008, Bioinform..

Gene Prediction by Pattern Recognition and Homology Search

Ying Xu, Edward C. Uberbacher, E. Uberbacher, 1996, ISMB.

In-silico prediction of blood-secretory human proteins using a ranking algorithm

Ying Xu, Qiang Yang, Qi Liu, 2010, BMC Bioinformatics.

A knowledge base for computational pathway reconstruction

Peng Wang, Ying Xu, Zhengchang Su, 2004, Proceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004..

An Algorithm for Simultaneous Backbone Threading and Side-Chain Packing

Ying Xu, Guojun Li, Zhijie Liu, 2008, Algorithmica.

An efficient branch-and-bound algorithm for the assignment of protein backbone NMR peaks

Zhi-Zhong Chen, Tao Jiang, Ying Xu, 2002, Proceedings. IEEE Computer Society Bioinformatics Conference.

Approximation algorithms for NMR spectral peak assignment

Zhi-Zhong Chen, Tao Jiang, Ying Xu, 2003, Theor. Comput. Sci..

Constructing gene models from accurately predicted exons: an application of dynamic programming

Ying Xu, Edward C. Uberbacher, Richard J. Mural, 1994, Comput. Appl. Biosci..

A computational method for assessing peptide-identification reliability in tandem mass spectrometry analysis with SEQUEST

Ying Xu, Edward C. Uberbacher, Dong Xu, 2003, Computational Systems Bioinformatics. CSB2003. Proceedings of the 2003 IEEE Bioinformatics Conference. CSB2003.

Quartet decomposition server: a platform for analyzing phylogenetic trees

Ying Xu, Fenglou Mao, J. Peter Gogarten, 2012, BMC Bioinformatics.

Accurate prediction of orthologous gene groups in microbes

Ying Xu, Hongwei Wu, Fenglou Mao, 2005, 2005 IEEE Computational Systems Bioinformatics Conference (CSB'05).

2D image segmentation using minimum spanning trees

Ying Xu, Edward C. Uberbacher, E. Uberbacher, 1997, Image Vis. Comput..

Computational Challenges in Deciphering Genomic Structures of Bacteria

Ying Xu, Ying Xu, 2010, Journal of Computer Science and Technology.

Bioinformatics Advance Access published September 10, 2009 De Novo Computational Prediction of Non-coding RNA Genes in

Ying Xu, Fengfeng Zhou, Thao T. Tran, 2022 .

Genome-wide discovery of missing genes in biological pathways of prokaryotes

Yong Chen, Ying Xu, Fenglou Mao, 2011, BMC Bioinformatics.

Mapping of microbial pathways through constrained mapping of orthologous genes

Ying Xu, Hanchuan Peng, Victor Olman, 2004, Proceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004..

CUBIC: search for binding sites

Ying Xu, Victor Olman, Jizhu Lu, 2004, Proceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004..

Gene Expression Data Analysis in Subtypes of Ovarian Cancer Using Covariance Analysis

Peng Wang, Ying Xu, Victor Olman, 2006, J. Bioinform. Comput. Biol..

RNACluster: An integrated tool for RNA secondary structure comparison and clustering

Huiqing Liu, Ying Xu, Qi Liu, 2008, J. Comput. Chem..

PFP: A Computational Framework for Phylogenetic Footprinting in Prokaryotic Genomes

Ying Xu, Dongsheng Che, Shane T. Jensen, 2008, ISBRA.

Optimal checkerboard selection for structured light system calibration

Ying Xu, Song Zhang, William Lohry, 2009, Optical Engineering + Applications.

CSS-Palm: palmitoylation site prediction with a clustering and scoring strategy (CSS)

Yu Xue, Ying Xu, Fengfeng Zhou, 2006, Bioinform..

Revisiting operons: an analysis of the landscape of transcriptional units in E. coli

Xin Chen, Ying Xu, Bingqiang Liu, 2015, BMC Bioinformatics.

An integrated toolkit for accurate prediction and analysis of cis-regulatory motifs at a genome scale

Ying Xu, Chuan Zhou, Bingqiang Liu, 2013, Bioinform..

Protein Threading by Linear Programming: Theoretical Analysis and Computational Results

Ying Xu, Ming Li, Jinbo Xu, 2004, J. Comb. Optim..

Analyses of domains and domain fusions in human proto-oncogenes

Huiqing Liu, Ying Xu, Qi Liu, 2009, BMC Bioinformatics.

Sorting Genomes by Reciprocal Translocations, Insertions, and Deletions

Ying Xu, Shuguang Li, Guojun Li, 2010, IEEE ACM Trans. Comput. Biol. Bioinform..

Cubic: Identification of Regulatory Binding Sites through Data Clustering

Ying Xu, Dong Xu, Victor Olman, 2003, J. Bioinform. Comput. Biol..

Peptide sequence tag-based blind identification of post-translational modifications with point process model

Bo Yan, Liming Cai, Ying Xu, 2006, ISMB.

Improving operon prediction in E. coli

Ying Xu, Victor Olman, PhuongAn Dam, 2005, 2005 IEEE Computational Systems Bioinformatics Conference - Workshops (CSBW'05).

Computational inference of transcription regulation and response networks in Synechococcus sp. WH8102

Ying Xu, Victor Olman, Zhengchang Su, 2004, Proceedings. Fourth IEEE Symposium on Bioinformatics and Bioengineering.

Detect the Different Isoforms Using GeneChip Human Exon 1.0 ST Arrays

Ying Xu, Hsiao-Fang Lin, Mi-Chia Ma, 2009, 2009 2nd International Conference on Biomedical Engineering and Informatics.

On application of directons to functional classification of genes in prokaryotes

Ying Xu, Hongwei Wu, Fenglou Mao, 2008, Comput. Biol. Chem..

A Universal operon Predictor for prokaryotic genomes

Ying Xu, Guojun Li, Dongsheng Che, 2009, J. Bioinform. Comput. Biol..

Correcting sequencing errors in DNA coding regions using a dynamic programming approach

Ying Xu, Edward C. Uberbacher, Richard J. Mural, 1995, Comput. Appl. Biosci..

Structural genomics analysis of alternative splicing and its application in modeling structures of alternatively spliced variants

Bo Yan, Peng Wang, Ying Xu, 2005, 2005 IEEE Computational Systems Bioinformatics Conference - Workshops (CSBW'05).

A Point-Process Model for Rapid Identification of Post-Translational Modifications

Bo Yan, Peng Wang, Ying Xu, 2006, Pacific Symposium on Biocomputing.

Photonic lattices achieved with high-power femtosecond laser microexplosion in transparent solid materials

Ying Xu, Saulius Juodkazis, Hiroaki Misawa, 2000, Advanced High-Power Lasers and Applications.

Inferring Gene Structures in Genomic Sequences Using Pattern Recognition and Expressed Sequence Tags

Ying Xu, Edward C. Uberbacher, Richard J. Mural, 1997, ISMB.

Navigation Augmentation based on LEO Communication Satellite Constellations

Ying Xu, Hong Yuan, Ruidan Luo, 2018 .

On Connected [g,f +1]-Factors in Graphs

Ying Xu, Guojun Li, Zhenhong Liu, 2005, Comb..

PUEPro: A Computational Pipeline for Prediction of Urine Excretory Proteins

Xin Chen, Ying Xu, Yanchun Liang, 2016, ADMA.

DMINDA: an integrated web server for DNA motif identification and analyses

Xin Chen, Ying Xu, Chuan Zhou, 2014, Nucleic Acids Res..

An Algorithm for Hierarchical Classification of Genes of Prokaryotic Genomes

Ying Xu, Hongwei Wu, Fenglou Mao, 2007, ISBRA.

The Probability Distribution for a Random Match between an Experimental-theoretical Spectral Pair in Tandem Mass Spectrometry

Ying Xu, Vladimir Protopopescu, Gregory B. Hurst, 2005, J. Bioinform. Comput. Biol..

Editorial from the editor-in-chief

Ying Xu, Ying Xu, 2014, TCBB.

A New Multichannel Acquisition Method for Navigation Signal Based on Compound Carrier

Ying Xu, Hong Yuan, Ruidan Luo, 2016 .

Identification of Regulatory Binding Sites Using Minimum Spanning Trees

Ying Xu, Dong Xu, Victor Olman, 2003, Pacific Symposium on Biocomputing.

Separation of ion types in tandem mass spectrometry data interpretation - a graph-theoretic approach

Bo Yan, Ying Xu, Victor Olman, 2004, Proceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004..

Improved Approximation Algorithms for NMR Spectral Peak Assignment

Zhi-Zhong Chen, Tao Jiang, Ying Xu, 2002, WABI.

Protein structure determination using protein threading and sparse NMR data (extended abstract)

Ying Xu, Dong Xu, J. Ralph Einstein, 1999, RECOMB '00.

Clustering gene expression data using a graph-theoretic approach: an application of minimum spanning trees

Ying Xu, Dong Xu, Victor Olman, 2002, Bioinform..

Protein Fold Recognition Through Application of Residual Dipolar Coupling Data

Ying Xu, Victor Olman, Jun-tao Guo, 2004, Pacific Symposium on Biocomputing.

More Reliable Protein NMR Peak Assignment via Improved 2-Interval Scheduling

Zhi-Zhong Chen, Tao Jiang, Ying Xu, 2003, ESA.

An Efficient Computational Method for Globally Optimal Threading

Ying Xu, Edward C. Uberbacher, Dong Xu, 1998, J. Comput. Biol..

A Computational Method for NMR-Constrained Protein Threading

Ying Xu, Dong Xu, J. Ralph Einstein, 2000, J. Comput. Biol..

PRIMEGENS: robust and efficient design of gene-specific probes for microarray analysis

Ying Xu, Dong Xu, Guangshan Li, 2002, Bioinform..

A new method for modeling and solving the protein fold recognition problem (extended abstract)

Ying Xu, Edward C. Uberbacher, Dong Xu, 1998, RECOMB '98.

Raptor: Optimal Protein Threading by Linear Programming

Ying Xu, Ming Li, Dongsup Kim, 2003, J. Bioinform. Comput. Biol..

Understanding microbial genomic structures and applications to biological pathway inference

Tao Jiang, Xin Chen, Ying Xu, 2006, 2006 IEEE International Conference on Granular Computing.

More Reliable Protein NMR Peak Assignment via Improved 2-Interval Scheduling

Zhi-Zhong Chen, Tao Jiang, Ying Xu, 2005, J. Comput. Biol..

Elucidation of drivers for cancer initiation and metastasis: A data-mining approach

Ying Xu, 2013, BIBM.

A computational pipeline for protein structure prediction and analysis at genome scale

Ying Xu, Manesh J. Shah, Dong Xu, 2003, Third IEEE Symposium on Bioinformatics and Bioengineering, 2003. Proceedings..

PROSPECT-PSPP: an automatic computational pipeline for protein structure prediction

Ying Xu, Dong Xu, Kyle Ellrott, 2004, Nucleic Acids Res..

Reference-based gene model prediction on DNA contigs (extended abstract)

Ying Xu, Edward C. Uberbacher, E. Uberbacher, 1997, RECOMB '97.

cBar: a computer program to distinguish plasmid-derived from chromosome-derived sequence fragments in metagenomics data

Ying Xu, Fengfeng Zhou, F. Zhou, 2010, Bioinform..

Reconsideration of in silico siRNA design from a perspective of heterogeneous data integration: problems and solutions

Ying Xu, Qi Liu, Ruixin Zhu, 2014, Briefings Bioinform..

A computational pipeline for protein structure prediction and analysis at genome scale

Li Wang, Ying Xu, Manesh J. Shah, 2003, Bioinform..

Detection of RNA Polymerase II Promoters and Polyadenylation Sites in Human DNA Sequence

Ying Xu, Xiaojun Guan, Edward C. Uberbacher, 1996, Comput. Chem..

Computational construction of nitrogen assimilation pathway cyanobacteria Synechococcus sp. WH8102

Tao Jiang, Ying Xu, X. Chen, 2004, Proceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004..

Fast De novo Peptide Sequencing and Spectral Alignment via Tree Decomposition

Bo Yan, Liming Cai, Ying Xu, 2006, Pacific Symposium on Biocomputing.

High Dynamic Control of a Flexure Fast Tool Servo Using On-line Sequential Extreme Learning Machine

Ying Xu, Xin Chen, Xun Chen, 2018, 2018 IEEE/ASME International Conference on Advanced Intelligent Mechatronics (AIM).

Computational inference of regulatory pathways in microbes

Tao Jiang, Xin Chen, Ying Xu, 2003, Computational Systems Bioinformatics. CSB2003. Proceedings of the 2003 IEEE Bioinformatics Conference. CSB2003.

Structural analysis of FGFR1 kinase activation through molecular dynamics simulation

Peng Wang, Ying Xu, Zhengchang Su, 2004, Proceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004..

Efficient algorithms for independent assignment on graphic and linear matroids

Ying Xu, Harold N. Gabow, H. Gabow, 1989, 30th Annual Symposium on Foundations of Computer Science.

Efficient Theoretic and Practical Algorithms for Linear Matroid Intersection Problems

Ying Xu, Harold N. Gabow, H. Gabow, 1996, J. Comput. Syst. Sci..

Prediction of cis-Regulatory Elements: from High-Information Content Analysis to Motif Identification

Ying Xu, Victor Olman, Jizhu Lu, 2007, J. Bioinform. Comput. Biol..

Protein domain decomposition using a graph-theoretic approach

Ying Xu, Dong Xu, Harold N. Gabow, 2000, Bioinform..

DOOR: a database for prokaryotic operons

Ying Xu, Fenglou Mao, Victor Olman, 2008, Nucleic Acids Res..

An Algorithm for Simultaneous Backbone Threading and Side-Chain Packing

Ying Xu, Guojun Li, Zhijie Liu, 2007, Algorithmica.

Editorial from the editor-in-chief

Ying Xu, 2015, TCBB.

Mapping of orthologous genes in the context of biological pathways: An application of integer programming

Ying Xu, Fenglou Mao, Victor Olman, 2006, Proc. Natl. Acad. Sci. USA.

PROMOCO: a new program for prediction of cis regulatory elements: from high-information content analysis to clique identification

Ying Xu, Guojun Li, Victor Olman, 2005, 2005 IEEE Computational Systems Bioinformatics Conference - Workshops (CSBW'05).

Carrying out Phylogenetic Analyses through Computational Model Checking

Ying Xu, 2015, Computer.

Reviewer appreciation editorial

Ying Xu, 2014, TCBB.

DOOR: a prokaryotic operon database for genome analyses and functional inference

Ying Xu, Qin Ma, Xin Chen, 2019, Briefings Bioinform..

dbCAN: a web resource for automated carbohydrate-active enzyme annotation

Xin Chen, Ying Xu, Jincai Yang, 2012, Nucleic Acids Res..

A segmentation algorithm for noisy images: Design and evaluation

Ying Xu, Edward C. Uberbacher, Victor Olman, 1998, Pattern Recognit. Lett..

Automated assignment of backbone NMR peaks using constrained bipartite matching

Tao Jiang, Ying Xu, Dong Xu, 2002, Comput. Sci. Eng..

CUBIC: identification of regulatory binding sites through data clustering

Ying Xu, Dong Xu, Victor Olman, 2003, Computational Systems Bioinformatics. CSB2003. Proceedings of the 2003 IEEE Bioinformatics Conference. CSB2003.

A polynomial-time approximation scheme for embedding hypergraph in a cycle

Xiaotie Deng, Ying Xu, Guojun Li, 2009, TALG.

Barcodes for genomes and applications

Ying Xu, Fengfeng Zhou, Victor Olman, 2008, BMC Bioinformatics.

Insertion Sequences show diverse recent activities in Cyanobacteria and Archaea

Ying Xu, Victor Olman, Ying Xu, 2008, BMC Genomics.

Prediction of functional modules based on comparative genome analysis and Gene Ontology application

Ying Xu, Fenglou Mao, Victor Olman, 2005, Nucleic acids research.

QUBIC: a qualitative biclustering algorithm for analyses of gene expression data

Ying Xu, Guojun Li, Qin Ma, 2009, Nucleic acids research.

A new framework for identifying cis-regulatory motifs in prokaryotes

Ying Xu, Bingqiang Liu, Guojun Li, 2010, Nucleic acids research.

Computational inference and experimental validation of the nitrogen assimilation regulatory network in cyanobacterium Synechococcus sp. WH 8102

Ying Xu, Ian T. Paulsen, Fenglou Mao, 2006, Nucleic acids research.

Mapping abeta amyloid fibril secondary structure using scanning proline mutagenesis.

Ying Xu, Jun-tao Guo, Ronald Wetzel, 2004, Journal of molecular biology.

Separation of ion types in tandem mass spectrometry data interpretation - a graph-theoretic approach

Ying Xu, Victor Olman, Chongle Pan, 2004 .

Identification and Typing of Human Enterovirus: A Genomic Barcode Approach

Ying Xu, Bin Liu, Fan Li, 2011, PloS one.

QServer: A Biclustering Server for Prediction and Assessment of Co-Expressed Gene Clusters

Ying Xu, Guojun Li, Fengfeng Zhou, 2012, PloS one.

Structure‐based prediction of transcription factor binding sites using a protein‐DNA docking approach

Ying Xu, Ting Li, Jun-tao Guo, 2008, Proteins.

Understanding the commonalities and differences in genomic organizations across closely related bacteria from an energy perspective

Ying Xu, Qin Ma, Chao Liu, 2014, Science China Life Sciences.

Improved peptide elution time prediction for reversed-phase liquid chromatography-MS by incorporating peptide sequence information.

Ying Xu, Ronald J Moore, Matthew E Monroe, 2006, Analytical chemistry.

Gene identification and analysis: an application of neural network-based information fusion

Ying Xu, Edward C. Uberbacher, Richard J. Mural, 1996 .

Reconsideration of In-Silico siRNA Design Based on Feature Selection: A Cross-Platform Data Integration Perspective

Ying Xu, Zhiwei Cao, Juan Cui, 2012, PloS one.

Protein structure prediction using sparse dipolar coupling data.

Ying Xu, Victor Olman, Jun-tao Guo, 2004, Nucleic acids research.

Towards modeling of amyloid fibril structures.

Ying Xu, Jun-tao Guo, Jun-tao Guo, 2008, Frontiers in bioscience : a journal and virtual library.

Energetics and stability of transmembrane helix packing: A replica‐exchange simulation with a knowledge‐based membrane potential

Ying Xu, Zhong Chen, 2006, Proteins.

Carbon Sequestration in Synechococcus Sp.: From Molecular Machines to Hierarchical Modeling

Nagiza F. Samatova, Ying Xu, Steven J. Plimpton, 2002 .

A CLOSE-TO OPTIMUM BI-CLUSTERING ALGORITHM FOR MICROARRAY GENE EXPRESSION DATA

Ying Xu, Bingqiang Liu, Guojun Li, 2009 .

Computational prediction of operons in Synechococcus sp. WH8102.

Xin Chen, Ying Xu, Zhengchang Su, 2004, Genome informatics. International Conference on Genome Informatics.

Accurate recognition of cis-regulatory motifs with the correct lengths in prokaryotic genomes

Ying Xu, Bingqiang Liu, Guojun Li, 2009, Nucleic acids research.

A computational method for assessing peptide‐ identification reliability in tandem mass spectrometry analysis with SEQUEST

Ying Xu, Edward C. Uberbacher, Dong Xu, 2004 .

Limitations of Ab Initio Predictions of Peptide Binding to MHC Class II Molecules

Ying Xu, Philip E. Bourne, Morten Nielsen, 2010, PloS one.

Improvement in protein sequence-structure alignment using insertion/deletion frequency arrays.

Ying Xu, Victor Olman, Kyle Ellrott, 2007, Computational systems bioinformatics. Computational Systems Bioinformatics Conference.

In silico construction of the carbon fixation pathway in Synechococcus sp. WH8102

Ying Xu, Victor Olman, Zhengchang Su, 2004 .

Computational inference of regulatory pathways in microbes: an application to phosphorus assimilation pathways in Synechococcus sp. WH8102.

Xin Chen, Ying Xu, Victor Olman, 2003, Genome informatics. International Conference on Genome Informatics.

Prediction of functional modules based on gene distributions in microbial genomes.

Ying Xu, Fenglou Mao, Victor Olman, 2005, Genome informatics. International Conference on Genome Informatics.

Integration of sequence-similarity and functional association information can overcome intrinsic problems in orthology mapping across bacterial genomes

Ying Xu, Guojun Li, Qin Ma, 2011, Nucleic acids research.

Comparative genomics analysis of NtcA regulons in cyanobacteria: regulation of nitrogen assimilation and its coupling to photosynthesis

Ying Xu, Fenglou Mao, Victor Olman, 2005, Nucleic acids research.

A Recently Active Miniature Inverted-Repeat Transposable Element, Chunjie, Inserted Into an Operon Without Disturbing the Operon Structure in Geobacter uraniireducens Rf4

Ying Xu, Guojun Li, Fengfeng Zhou, 2008, Genetics.

Structural genomics analysis of alternative splicing and application to isoform structure modeling.

Ying Xu, Peng Wang, Chindo Hicks, 2005, Proceedings of the National Academy of Sciences of the United States of America.

Protein Structure Prediction by Protein Threading

Liming Cai, Ying Xu, Dong Xu, 2010, Computational Methods for Protein Structure Prediction and Modeling.

Nezha, a novel active miniature inverted-repeat transposable element in cyanobacteria.

Ying Xu, Thao T. Tran, Ying Xu, 2008, Biochemical and biophysical research communications.

Computational prediction and experimental validation of novel markers for detection of STEC O157:H7.

Ying Xu, Victor Olman, Fan Li, 2011, World journal of gastroenterology.

Prediction of pathogenicity islands in Enterohemorrhagic Escherichia coli O157:H7 using genomic barcodes

Ying Xu, Victor Olman, Fan Li, 2010, FEBS letters.

Operon prediction in Pyrococcus furiosus

Ying Xu, Zhengchang Su, Farris L. Poole, 2006 .

Genomic arrangement of bacterial operons is constrained by biological pathways encoded in the genome

Ying Xu, Victor Olman, Yanbin Yin, 2010, Proceedings of the National Academy of Sciences.

RepPop: a database for repetitive elements in Populus trichocarpa

Ying Xu, Ying Xu, Fengfeng Zhou, 2009, BMC Genomics.

Computational analyses of transcriptomic data reveal the dynamic organization of the Escherichia coli chromosome under different conditions

Ying Xu, Guojun Li, Qin Ma, 2013, Nucleic acids research.

Computational Genome Annotation

Ying Xu, 2005 .

Genomic Arrangement of Regulons in Bacterial Genomes

Ying Xu, Victor Olman, Yanbin Yin, 2012, PloS one.