Efficient Algorithms for Independent Assignments on Graphic and Linear Matroids - Harold N. Gabow; Ying Xu 001 (FOCS, 1989)

Fast Algorithms for Transversal Matroid Intersection Problems - Ying Xu 001; Harold N. Gabow (ISAAC, 1994)

Constructing gene models from accurately predicted exons: an application of dynamic programming. - Ying Xu 001; Richard J. Mural; Edward C. Uberbacher (Comput. Appl. Biosci., 1994)

Correcting sequencing errors in DNA coding regions using a dynamic programming approach. - Ying Xu 001; Richard J. Mural; Edward C. Uberbacher (Comput. Appl. Biosci., 1995)

Gene Prediction by Pattern Recognition and Homology Search. - Ying Xu 001; Edward C. Uberbacher (ISMB, 1996)

A polynomial-time algorithm for a class of protein threading problems. - Ying Xu 001; Edward C. Uberbacher (Comput. Appl. Biosci., 1996)

Detection of RNA Polymerase II Promoters and Polyadenylation Sites in Human DNA Sequence. - Sherri Matis; Ying Xu 001; Manesh J. Shah; Xiaojun Guan; J. Ralph Einstein; Richard J. Mural; Edward C. Uberbacher (Comput. Chem., 1996)

An Iterative Algorithm for Correcting Sequencing Errors in DNA Coding Regions. - Ying Xu 001; Richard J. Mural; Edward C. Uberbacher (J. Comput. Biol., 1996)

Efficient Theoretic and Practical Algorithms for Linear Matroid Intersection Problems. - Harold N. Gabow; Ying Xu 001 (J. Comput. Syst. Sci., 1996)

GRAIL: a multi-agent neural network system for gene identification. - Ying Xu 001; Richard J. Mural; J. Ralph Einstein; Manesh B. Shah; Edward C. Uberbacher (Proc. IEEE, 1996)

Inferring Gene Structures in Genomic Sequences Using Pattern Recognition and Expressed Sequence Tags. - Ying Xu 001; Richard J. Mural; Edward C. Uberbacher (ISMB, 1997)

Reference-based gene model prediction on DNA contigs (extended abstract). - Ying Xu 001; Edward C. Uberbacher (RECOMB, 1997)

2D image segmentation using minimum spanning trees. - Ying Xu 001; Edward C. Uberbacher (Image Vis. Comput., 1997)

Automated Gene Identification in Large-Scale Genomic Sequences. - Ying Xu 001; Edward C. Uberbacher (J. Comput. Biol., 1997)

A new method for modeling and solving the protein fold recognition problem (extended abstract). - Ying Xu 001; Dong Xu 002; Edward C. Uberbacher (RECOMB, 1998)

An Efficient Computational Method for Globally Optimal Threading. - Ying Xu 001; Dong Xu 002; Edward C. Uberbacher (J. Comput. Biol., 1998)

A segmentation algorithm for noisy images: Design and evaluation. - Ying Xu 001; Victor Olman; Edward C. Uberbacher (Pattern Recognit. Lett., 1998)

Protein structure determination using protein threading and sparse NMR data (extended abstract). - Ying Xu 001; Dong Xu 002; Oakley H. Crawford; J. Ralph Einstein; Engin Serpersu (RECOMB, 2000)

Sequence-structure specificity of a knowledge based energy function at the secondary structure level. - Dong Xu 002; Michael A. Unseren; Ying Xu 001; Edward C. Uberbacher (Bioinform., 2000)

Protein domain decomposition using a graph-theoretic approach. - Ying Xu 001; Dong Xu 002; Harold N. Gabow (Bioinform., 2000)

A Computational Method for NMR-Constrained Protein Threading. - Ying Xu 001; Dong Xu 002; Oakley H. Crawford; J. Ralph Einstein (J. Comput. Biol., 2000)

An Efficient Branch-and-Bound Algorithm for the Assignment of Protein Backbone NMR Peaks. - Guo-Hui Lin; Dong Xu 002; Zhi-Zhong Chen; Tao Jiang 001; Jianjun Wen; Ying Xu 001 (CSB, 2002)

Improved Approximation Algorithms for NMR Spectral Peak Assignment. - Zhi-Zhong Chen; Tao Jiang 001; Guo-Hui Lin; Jianjun Wen; Dong Xu 002; Ying Xu 001 (WABI, 2002)

PRIMEGENS: robust and efficient design of gene-specific probes for microarray analysis. - Dong Xu 002; Guangshan Li; Liyou Wu; Jizhong Zhou; Ying Xu 001 (Bioinform., 2002)

Clustering gene expression data using a graph-theoretic approach: an application of minimum spanning trees. - Ying Xu 001; Victor Olman; Dong Xu 002 (Bioinform., 2002)

Automated assignment of backbone NMR peaks using constrained bipartite matching. - Ying Xu 001; Dong Xu 002; Dongsup Kim; Victor Olman; Jane Razumovskaya; Tao Jiang 001 (Comput. Sci. Eng., 2002)

Towards Automated Derivation of Biological Pathways Using High-Throughput Biological Data. - Yu Chen; Trupti Joshi; Ying Xu 001; Dong Xu 002 (BIBE, 2003)

A Computational Method for Assessing Peptide-Identification Reliability in Tandem Mass Spectrometry Analysis with SEQUEST. - Jane Razumovskaya; Victor Olman; Dong Xu 002; Edward C. Uberbacher; Nathan Verberkmoes; Ying Xu 001 (CSB, 2003)

Computational Inference of Regulatory Pathways in Microbes. - Zhengchang Su; PhuongAn Dam; Xin Chen 037; Victor Olman; Tao Jiang 001; Brian Palenik; Ying Xu 001 (CSB, 2003)

Identification of Regulatory Binding Sites Using Minimum Spanning Trees. - Victor Olman; Dong Xu 002; Ying Xu 001 (Pacific Symposium on Biocomputing, 2003)

Protein Threading by Linear Programming. - Jinbo Xu; Ming Li 001; Guo-Hui Lin; Dongsup Kim; Ying Xu 001 (Pacific Symposium on Biocomputing, 2003)

A computational pipeline for protein structure prediction and analysis at genome scale. - Manesh J. Shah; Sergei Passovets; Dongsup Kim; Kyle Ellrott; Li Wang 008; Inna Vokler; Philip F. LoCascio; Dong Xu 002; Ying Xu 001 (Bioinform., 2003)

MOLVIE: an interactive visualization environment for molecular structures. - Huandong Sun; Ming Li 001; Ying Xu 001 (Comput. Methods Programs Biomed., 2003)

Computational Assignment of Protein Backbone Nmr Peaks Byefficient Bounding and Filtering. - Guohui Lin; Dong Xu 002; Zhi-Zhong Chen; Tao Jiang 001; Jianjun Wen; Ying Xu 001 (J. Bioinform. Comput. Biol., 2003)

Cubic: Identification of Regulatory Binding Sites through Data Clustering. - Victor Olman; Dong Xu 002; Ying Xu 001 (J. Bioinform. Comput. Biol., 2003)

Raptor: Optimal Protein Threading by Linear Programming. - Jinbo Xu; Ming Li 001; Dongsup Kim; Ying Xu 001 (J. Bioinform. Comput. Biol., 2003)

Approximation algorithms for NMR spectral peak assignment. - Zhi-Zhong Chen; Tao Jiang 001; Guo-Hui Lin; Jianjun Wen; Dong Xu 002; Jinbo Xu; Ying Xu 001 (Theor. Comput. Sci., 2003)

Computational Inference of Transcription Regulation and Response Networks in Synechococcus sp. WH8102. - Zhengchang Su; PhuongAn Dam; Victor Olman; Ying Xu 001 (BIBE, 2004)

In Silico Construction of the Carbon Fixation Pathway in Synechococcus sp. WH8102. - PhuongAn Dam; Zhengchang Su; Victor Olman; Ying Xu 001 (CSB, 2004)

Molecular Modeling of Full-Length OxyR from Shewanella oneidensis MR-1 and Molecular Dynamics Studies of the Activation Domain. - Jun-tao Guo; Ying Xu 001 (CSB, 2004)

Pathway Mapping with Operon Information: An Integer-Programming Method. - Fenglou Mao; Zhengchang Su; Victor Olman; David Chuang; Ying Xu 001 (CSB, 2004)

CUBIC: Search for Binding Sites. - Victor Olman; Jizhu Lu; PhuongAn Dam; Zhengchang Su; Ying Xu 001 (CSB, 2004)

Mapping of Microbial Pathways through Constrained Mapping of Orthologous Genes. - Victor Olman; Hanchuan Peng; Zhengchang Su; Ying Xu 001 (CSB, 2004)

Computational Construction of Nitrogen Assimilation Pathway in Cyanobacteria Synechococcus sp. WH8102. - Zhengchang Su; PhuongAn Dam; X. Chen; Victor Olman; Tao Jiang 001; Ying Xu 001 (CSB, 2004)

A Knowledge Base for Computational Pathway Reconstruction. - Peng Wang; Zhengchang Su; PhuongAn Dam; Ying Xu 001 (CSB, 2004)

Structural Analysis of FGFR1 Kinase Activation through Molecular Dynamics Simulation. - Peng Wang; Zhengchang Su; Jun-tao Guo; Ying Xu 001 (CSB, 2004)

Separation of Ion Types in Tandem Mass Spectrometry Data Interpretation - A Graph-Theoretic Approach. - Bo Yan; Chongle Pan; Victor Olman; Robert L. Hettich; Ying Xu 001 (CSB, 2004)

Protein Fold Recognition Through Application of Residual Dipolar Coupling Data. - Youxing Qu; Jun-tao Guo; Victor Olman; Ying Xu 001 (Pacific Symposium on Biocomputing, 2004)

Protein Threading by Linear Programming: Theoretical Analysis and Computational Results. - Jinbo Xu; Ming Li 001; Ying Xu 001 (J. Comb. Optim., 2004)

PROSPECT-PSPP: an automatic computational pipeline for protein structure prediction. - Jun-tao Guo; Kyle Ellrott; Won Jae Chung; Dong Xu 002; Sergei Passovets; Ying Xu 001 (Nucleic Acids Res., 2004)

Computational Reconstruction of the carbon fixation pathway in Synechococcus SP. Wh 8102. - PhuongAn Dam; Zhengchang Su; Victor Olman; Ying Xu 001 (Advances in Bioinformatics and Its Applications, 2005)

Improving Operon Prediction in E. coli. - PhuongAn Dam; Victor Olman; Ying Xu 001 (CSB Workshops, 2005)

PROMOCO: a New Program for Prediction of cis Regulatory Elements: From High-Information Content Analysis to Clique Identification. - Guojun Li; Jizhu Lu; Victor Olman; Ying Xu 001 (CSB Workshops, 2005)

Structural genomics analysis of alternative splicing and its application in modeling structures of alternatively spliced variants. - Peng Wang; Bo Yan; Jun-tao Guo; Chindo Hicks; Ying Xu 001 (CSB Workshops, 2005)

Accurate Prediction of Orthologous Gene Groups in Microbes. - Hongwei Wu; Fenglou Mao; Victor Olman; Ying Xu 001 (CSB, 2005)

Efficient Parameterized Algorithm for Biopolymer Structure-Sequence Alignment. - Yinglei Song; Chunmei Liu; Xiuzhen Huang; Russell L. Malmberg; Ying Xu 001; Liming Cai (WABI, 2005)

A graph-theoretic approach for the separation of b and y ions in tandem mass spectra. - Bo Yan; Chongle Pan; Victor Olman; Robert L. Hettich; Ying Xu 001 (Bioinform., 2005)

On Connected [g, f +1]-Factors in Graphs. - Guojun Li; Ying Xu 001; Chuanping Chen; Zhenhong Liu (Comb., 2005)

The Probability Distribution for a Random Match between an Experimental-theoretical Spectral Pair in Tandem Mass Spectrometry. - Tema Fridman; Jane Razumovskaya; Nathan Verberkmoes; Gregory B. Hurst; Vladimir Protopopescu; Ying Xu 001 (J. Bioinform. Comput. Biol., 2005)

More Reliable Protein NMR Peak Assignment via Improved 2-Interval Scheduling. - Zhi-Zhong Chen; Guohui Lin; Romeo Rizzi; Jianjun Wen; Dong Xu 002; Ying Xu 001; Tao Jiang 001 (J. Comput. Biol., 2005)

Preface. - Ying Xu 001; Liming Cai; Zhiping Weng (J. Comput. Sci. Technol., 2005)

PRIME: A Mass Spectrum Data Mining Tool for De Nova Sequencing and PTMs Identification. - Bo Yan; Youxing Qu; Fenglou Mao; Victor Olman; Ying Xu 001 (J. Comput. Sci. Technol., 2005)

Understanding microbial genomic structures and applications to biological pathway inference. - Zhengchang Su; Fenglou Mao; Hongwei Wu; PhuongAn Dam; Xin Chen 037; Tao Jiang 001; Victor Olman; Brian Palenik; Ying Xu 001 (GrC, 2006)

DigitalTree: A Tool for Displaying Biological Data in Tree Structure. - Robin Kramer; Victor Olman; Ying Xu 001; Dong Xu 002 (International Conference on Computational Science (2), 2006)

Peptide sequence tag-based blind identification of post-translational modifications with point process model. - Chunmei Liu; Bo Yan; Yinglei Song; Ying Xu 001; Liming Cai (ISMB (Supplement of Bioinformatics), 2006)

Fast De novo Peptide Sequencing and Spectral Alignment via Tree Decomposition. - Chunmei Liu; Yinglei Song; Bo Yan; Ying Xu 001; Liming Cai (Pacific Symposium on Biocomputing, 2006)

A Point-Process Model for Rapid Identification of Post-Translational Modifications. - Bo Yan; G. Tong Zhou; Peng Wang; Zhijie Liu; Vincent A. Emanuele II; Victor Olman; Ying Xu 001 (Pacific Symposium on Biocomputing, 2006)

CSS-Palm: palmitoylation site prediction with a clustering and scoring strategy (CSS). - Fengfeng Zhou; Yu Xue 001; Xuebiao Yao; Ying Xu 001 (Bioinform., 2006)

Gene Expression Data Analysis in Subtypes of Ovarian Cancer Using Covariance Analysis. - Victor Olman; Chindo Hicks; Peng Wang; Ying Xu 001 (J. Bioinform. Comput. Biol., 2006)

SUMOsp: a web server for sumoylation site prediction. - Yu Xue 001; Fengfeng Zhou; Chuanhai Fu; Ying Xu 001; Xuebiao Yao (Nucleic Acids Res., 2006)

Mapping of orthologous genes in the context of biological pathways: An application of integer programming. - Fenglou Mao; Zhengchang Su; Victor Olman; PhuongAn Dam; Zhijie Liu; Ying Xu 001 (Proc. Natl. Acad. Sci. USA, 2006)

Efficient Parameterized Algorithms for Biopolymer Structure-Sequence Alignment. - Yinglei Song; Chunmei Liu; Xiuzhen Huang; Russell L. Malmberg; Ying Xu 001; Liming Cai (IEEE ACM Trans. Comput. Biol. Bioinform., 2006)

Operon Prediction in Microbial Genomes Using Decision Tree Approach. - Dongsheng Che; Jizhen Zhao; Liming Cai; Ying Xu 001 (CIBCB, 2007)

An Algorithm for Hierarchical Classification of Genes of Prokaryotic Genomes. - Hongwei Wu; Fenglou Mao; Victor Olman; Ying Xu 001 (ISBRA, 2007)

An Algorithm for Simultaneous Backbone Threading and Side-Chain Packing. - Guojun Li; Zhijie Liu; Jun-tao Guo; Ying Xu 001 (Algorithmica, 2007)

Prediction of cis-Regulatory Elements: from High-Information Content Analysis to Motif Identification. - Guojun Li; Jizhu Lu; Victor Olman; Ying Xu 001 (J. Bioinform. Comput. Biol., 2007)

PFP: A Computational Framework for Phylogenetic Footprinting in Prokaryotic Genomes. - Dongsheng Che; Guojun Li; Shane T. Jensen; Jun S. Liu; Ying Xu 001 (ISBRA, 2008)

Computational prediction of human proteins that can be secreted into the bloodstream. - Juan Cui; Qi Liu 019; David Puett; Ying Xu 001 (Bioinform., 2008)

Barcodes for genomes and applications. - Fengfeng Zhou; Victor Olman; Ying Xu 001 (BMC Bioinform., 2008)

On application of directons to functional classification of genes in prokaryotes. - Hongwei Wu; Fenglou Mao; Victor Olman; Ying Xu 001 (Comput. Biol. Chem., 2008)

Improving the Performance of protein Threading Using Insertion/Deletion Frequency Arrays. - Kyle Ellrott; Jun-tao Guo; Victor Olman; Ying Xu 001 (J. Bioinform. Comput. Biol., 2008)

RNACluster: An integrated tool for RNA secondary structure comparison and clustering. - Qi Liu 019; Victor Olman; Huiqing Liu; Xiuzi Ye; Shilun Qiu; Ying Xu 001 (J. Comput. Chem., 2008)

Detect the Different Isoforms Using GeneChip Human Exon 1.0 ST Arrays. - Mi-Chia Ma; Hsiao-Fang Lin; Ying Xu 001 (BMEI, 2009)

De novo computational prediction of non-coding RNA genes in prokaryotic genomes. - Thao T. Tran; Fengfeng Zhou; Sarah Marshburn; Mark Stead; Sidney R. Kushner; Ying Xu 001 (Bioinform., 2009)

Analyses of domains and domain fusions in human proto-oncogenes. - Qi Liu 019; Jinling Huang; Huiqing Liu; Ping Wan; Xiuzi Ye; Ying Xu 001 (BMC Bioinform., 2009)

Large-Scale Analyses of Glycosylation in Cellulases. - Fengfeng Zhou; Victor Olman; Ying Xu 001 (Genom. Proteom. Bioinform., 2009)

A Universal operon Predictor for prokaryotic genomes. - Guojun Li; Dongsheng Che; Ying Xu 001 (J. Bioinform. Comput. Biol., 2009)

Computational Challenges in Deciphering Genomic Structures of Bacteria. - Ying Xu 001 (J. Comput. Sci. Technol., 2009)

Preface. - Ying Xu 001; Ming Li 001; Tao Jiang 001 (J. Comput. Sci. Technol., 2009)

DOOR: a database for prokaryotic operons. - Fenglou Mao; PhuongAn Dam; Jacky Chou; Victor Olman; Ying Xu 001 (Nucleic Acids Res., 2009)

A polynomial-time approximation scheme for embedding hypergraph in a cycle. - Guojun Li; Xiaotie Deng; Ying Xu 001 (ACM Trans. Algorithms, 2009)

Parallel Clustering Algorithm for Large Data Sets with Applications in Bioinformatics. - Victor Olman; Fenglou Mao; Hongwei Wu; Ying Xu 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2009)

cBar: a computer program to distinguish plasmid-derived from chromosome-derived sequence fragments in metagenomics data. - Fengfeng Zhou; Ying Xu 001 (Bioinform., 2010)

In-silico prediction of blood-secretory human proteins using a ranking algorithm. - Qi Liu 019; Juan Cui; Qiang Yang 001; Ying Xu 001 (BMC Bioinform., 2010)

Foreword: Advances in Computational Systems Bioinformatics. - Ying Xu 001; Peter W. Markstein (J. Bioinform. Comput. Biol., 2010)

Sorting Genomes by Reciprocal Translocations, Insertions, and Deletions. - Xingqin Qi; Guojun Li; Shuguang Li; Ying Xu 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2010)

Genome-wide discovery of missing genes in biological pathways of prokaryotes. - Yong Chen; Fenglou Mao; Guojun Li; Ying Xu 001 (BMC Bioinform., 2011)

Quartet decomposition server: a platform for analyzing phylogenetic trees. - Fenglou Mao; David Williams 003; Olga Zhaxybayeva; Maria S. Poptsova; Pascal Lapierre; J. Peter Gogarten; Ying Xu 001 (BMC Bioinform., 2012)

dbCAN: a web resource for automated carbohydrate-active enzyme annotation. - Yanbin Yin; Xizeng Mao; Jincai Yang; Xin Chen; Fenglou Mao; Ying Xu 001 (Nucleic Acids Res., 2012)

Elucidation of drivers for cancer initiation and metastasis: A data-mining approach. - Ying Xu 001 (BIBM, 2013)

An integrated toolkit for accurate prediction and analysis of cis-regulatory motifs at a genome scale. - Qin Ma 003; Bingqiang Liu; Chuan Zhou 009; Yanbin Yin; Guojun Li; Ying Xu 001 (Bioinform., 2013)

Global Genomic Arrangement of Bacterial Genes Is Closely Tied with the Total Transcriptional Efficiency. - Qin Ma 003; Ying Xu 001 (Genom. Proteom. Bioinform., 2013)

Editorial from the New Editor-in-Chief. - Ying Xu 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2013)

Cancer Bioinformatics - Ying Xu 001; Juan Cui; David Puett (Springer, 2014)

Reconsideration of in silico siRNA design from a perspective of heterogeneous data integration: problems and solutions. - Qi Liu 019; Han Zhou; Ruixin Zhu; Ying Xu 001; Zhiwei Cao (Briefings Bioinform., 2014)

Functional Understanding of the Diverse exon-intron Structures of Human GPCR genes. - Dorothy A. Hammond; Victor Olman; Ying Xu 001 (J. Bioinform. Comput. Biol., 2014)

DMINDA: an integrated web server for DNA motif identification and analyses. - Qin Ma 003; Hanyuan Zhang; Xizeng Mao; Chuan Zhou 009; Bingqiang Liu; Xin Chen; Ying Xu 001 (Nucleic Acids Res., 2014)

DOOR 2.0: presenting operons and their functions through dynamic and integrated views. - Xizeng Mao; Qin Ma 003; Chuan Zhou 009; Xin Chen; Hanyuan Zhang; Jincai Yang; Fenglou Mao; Wei Lai; Ying Xu 001 (Nucleic Acids Res., 2014)

Population dynamics inside cancer biomass driven by repeated hypoxia-reoxygenation cycles. - Chi Zhang 021; Sha Cao; Ying Xu 001 (Quant. Biol., 2014)

Editorial from the Editor-in-Chief. - Ying Xu 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2014)

Reviewer Appreciation Editorial. - Ying Xu 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2014)

Revisiting operons: an analysis of the landscape of transcriptional units in E. coli. - Xizeng Mao; Qin Ma 003; Bingqiang Liu; Xin Chen; Hanyuan Zhang; Ying Xu 001 (BMC Bioinform., 2015)

Carrying out Phylogenetic Analyses through Computational Model Checking. - Ying Xu 001 (Computer, 2015)

PUEPro: A Computational Pipeline for Prediction of Urine Excretory Proteins. - Yan Wang 028; Wei Du 002; Yanchun Liang 001; Xin Chen; Chi Zhang 021; Wei Pang 001; Ying Xu 001 (ADMA, 2016)

A New Graph Theoretic Approach for Protein Threading. - Yinglei Song; Junfeng Qu; Ying Xu 001; Liming Cai (Fundam. Informaticae, 2016)

IsoTree: De Novo Transcriptome Assembly from RNA-Seq Reads - (Extended Abstract). - Jin Zhao 005; Haodi Feng; Daming Zhu; Chi Zhang 021; Ying Xu 001 (ISBRA, 2017)

Transcription regulation by DNA methylation under stressful conditions in human cancer. - Sha Cao; Yi Zhou; Yue Wu; Tianci Song; Burair Alsaihati; Ying Xu 001 (Quant. Biol., 2017)

High Dynamic Control of a Flexure Fast Tool Servo Using On-line Sequential Extreme Learning Machine. - Zelong Wu; Hui Tang 003; Xin Chen 005; Jian Gao 002; Yunbo He; Ying Xu 001; Xun Chen 002; Suet To; Yangmin Li 001; Chengqiang Cui (AIM, 2018)

DTAST: A Novel Radical Framework for de Novo Transcriptome Assembly Based on Suffix Trees. - Jin Zhao 005; Haodi Feng; Daming Zhu; Chi Zhang 021; Ying Xu 001 (ICIC (1), 2018)

Multi-Classification of Cancer Samples Based on Co-Expression Analyses. - Hongyang Jiang 002; Qiang Huang; Liang Chen 021; Zhi Li; Ying Xu 001; Huiyan Sun; Yi Chang 001 (BIBM, 2019)

Modified Edge-Weighted Centroidal Voronoi Tessellation for Image Segmentation. - Mengfei Li 002; Ying Xu 001; Hongwei Li 006 (ISICDM, 2019)

DOOR: a prokaryotic operon database for genome analyses and functional inference. - Huansheng Cao; Qin Ma 003; Xin Chen; Ying Xu 001 (Briefings Bioinform., 2019)

Structural and functional analyses of microbial metabolic networks reveal novel insights into genome-scale metabolic fluxes. - Gaoyang Li; Huansheng Cao; Ying Xu 001 (Briefings Bioinform., 2019)

DTA-SiST: de novo transcriptome assembly by using simplified suffix trees. - Jin Zhao 005; Haodi Feng; Daming Zhu; Chi Zhang 021; Ying Xu 001 (BMC Bioinform., 2019)

Warburg Effects in Cancer and Normal Proliferating Cells: Two Tales of the Same Name. - Huiyan Sun; Liang Chen 021; Sha Cao; Yanchun Liang 001; Ying Xu 001 (Genom. Proteom. Bioinform., 2019)

A Stable Autoregressive Moving Average Hysteresis Model in Flexure Fast Tool Servo Control. - Jiedong Li; Hui Tang 003; Zelong Wu; Hongcheng Li; Guixin Zhang; Xin Chen 005; Jian Gao 002; Ying Xu 001; Yunbo He (IEEE Trans Autom. Sci. Eng., 2019)

Identification of Cancer Development Related Pathways Based on Co-Expression Analyses. - Hongyang Jiang 002; Zhihang Wang; Chaoyi Yin; Peishuo Sun; Ying Xu 001; Huiyan Sun (BIBM, 2020)

IsoTree: A New Framework for de novo Transcriptome Assembly from RNA-seq Reads. - Jin Zhao 005; Haodi Feng; Daming Zhu; Chi Zhang 021; Ying Xu 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

Corrections to "IsoTree: A New Framework for de novo Transcriptome Assembly from RNA-seq Reads". - Jin Zhao 005; Haodi Feng; Daming Zhu; Chi Zhang 021; Ying Xu 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

Spatial-Temporal Relationship Study between NWP PWV and Precipitation: A Case Study of 'July 20' Heavy Rainstorm in Zhengzhou. - Ying Xu 001; Xin Chen; Min Liu; Jin Wang 001; Fangzhao Zhang; Jianhui Cui; Hongzhan Zhou (Remote. Sens., 2022)

Smartphone-Based Unconstrained Step Detection Fusing a Variable Sliding Window and an Adaptive Threshold. - Ying Xu 001; Guofeng Li; Zeyu Li; Hao Yu; Jianhui Cui; Jin Wang 001; Yu Chen (Remote. Sens., 2022)

A Novel Flexure Piezomotor With Minimized Backward and Nonlinear Motion Effect. - Sifeng He; Hui Tang 003; Zhongyuan Zhu; Peiyuan Zhang; Ying Xu 001; Xin Chen 005 (IEEE Trans. Ind. Electron., 2022)

Cancer is a Survival Process under Persistent Microenvironmental and Cellular Stresses. - Renbo Tan; Yi Zhou; Zheng An; Ying Xu 001 (Genom. Proteom. Bioinform., 2023)

Acid-Base Homeostasis and Implications to the Phenotypic Behaviors of Cancer. - Yi Zhou; Wennan Chang; Xiaoyu Lu; Jin Wang 001; Chi Zhang 021; Ying Xu 001 (Genom. Proteom. Bioinform., 2023)

GM(1,1)-Based Weighted K-Nearest Neighbor Algorithm for Indoor Localization. - Lai Xiang; Ying Xu 001; Jianhui Cui; Yang Liu; Ruozhou Wang; Guofeng Li (Remote. Sens., 2023)