Fast Parallel Algorithms for the Unit Cost Editing Distance Between Trees. - Dennis E. Shasha; Kaizhong Zhang (SPAA, 1989)

Simple Fast Algorithms for the Editing Distance Between Trees and Related Problems. - Kaizhong Zhang; Dennis E. Shasha (SIAM J. Comput., 1989)

The editing distance between trees: Algorithms and applications. - Kaizhong Zhang (1989)

Comparing multiple RNA secondary structures using tree comparisons. - Bruce A. Shapiro; Kaizhong Zhang (Comput. Appl. Biosci., 1990)

Fast Algorithms for the Unit Cost Editing Distance Between Trees. - Dennis E. Shasha; Kaizhong Zhang (J. Algorithms, 1990)

A Better Tree-Structured Vector Quantizer. - Xiaolin Wu 001; Kaizhong Zhang (Data Compression Conference, 1991)

A tool for tree pattern matching. - Jason Tsong-Li Wang; Kaizhong Zhang; Karpjoo Jeong; Dennis E. Shasha (ICTAI, 1991)

Fast Serial and Parallel Algorithms for Approximate Tree Matching with VLDC's. - Kaizhong Zhang; Dennis E. Shasha; Jason Tsong-Li Wang (CPM, 1992)

Pattern Matching in Unordered Trees. - Dennis E. Shasha; Jason Tsong-Li Wang; Kaizhong Zhang; Frank Yeong-Chyang Shih (ICTAI, 1992)

Characterizing Regular Languages with Polynomial Densities. - Andrew Szilard; Sheng Yu 001; Kaizhong Zhang; Jeffrey O. Shallit (MFCS, 1992)

On the Editing Distance Between Unordered Labeled Trees. - Kaizhong Zhang; Richard Statman; Dennis E. Shasha (Inf. Process. Lett., 1992)

A New Editing based Distance between Unordered Labeled Trees. - Kaizhong Zhang (CPM, 1993)

Quantizer monotonicities and globally optimal scalar quantizer design. - Xiaolin Wu 001; Kaizhong Zhang (IEEE Trans. Inf. Theory, 1993)

Matching with Matrix Norm Minimization. - Shouwen Tang; Kaizhong Zhang; Xiaolin Wu 001 (CPM, 1994)

A Subjective Distortion Measure for Vector Quantization. - Xiaolin Wu 001; Kaizhong Zhang (Data Compression Conference, 1994)

The approximate graph matching problem. - Jason T. L. Wang; Kaizhong Zhang; Gung-Wei Chirn (ICPR (2), 1994)

Approximate Graph Matching Using Probabilistic Hill Climbing Algorithms. - Jason Tsong-Li Wang; Kaizhong Zhang; Gung-Wei Chirn (ICTAI, 1994)

Combinatorial Pattern Discovery for Scientific Data: Some Preliminary Results. - Jason Tsong-Li Wang; Gung-Wei Chirn; Thomas G. Marr; Bruce A. Shapiro; Dennis E. Shasha; Kaizhong Zhang (SIGMOD Conference, 1994)

Some MAX SNP-Hard Results Concerning Unordered Labeled Trees. - Kaizhong Zhang; Tao Jiang 001 (Inf. Process. Lett., 1994)

Approximate Tree Matching in the Presence of Variable Length Don't Cares. - Kaizhong Zhang; Dennis E. Shasha; Jason Tsong-Li Wang (J. Algorithms, 1994)

A System for Approximate Tree Matching. - Jason Tsong-Li Wang; Kaizhong Zhang; Karpjoo Jeong; Dennis E. Shasha (IEEE Trans. Knowl. Data Eng., 1994)

Exact and approximate algorithms for unordered tree matching. - Dennis E. Shasha; Jason Tsong-Li Wang; Kaizhong Zhang; Frank Y. Shih (IEEE Trans. Syst. Man Cybern., 1994)

On the Complexity of Comparing Evolutionary Trees (Extended Abstract). - Jotun Hein; Tao Jiang 001; Lusheng Wang 001; Kaizhong Zhang (CPM, 1995)

On the Editing Distance between Undirected Acyclic Graphs and Related Problems. - Kaizhong Zhang; Jason Tsong-Li Wang; Dennis E. Shasha (CPM, 1995)

Pattern Matching and Pattern Discovery in Scientific, Program, and Document Databases. - Jason Tsong-Li Wang; Kaizhong Zhang; Dennis E. Shasha (SIGMOD Conference, 1995)

Algorithms for Approximate Graph Matching. - Jason Tsong-Li Wang; Kaizhong Zhang; Gung-Wei Chirn (Inf. Sci., 1995)

Algorithms for the constrained editing distance between ordered labeled trees and related problems. - Kaizhong Zhang (Pattern Recognit., 1995)

Alignment of Trees - An Alternative to Tree Edit. - Tao Jiang 001; Lusheng Wang 001; Kaizhong Zhang (Theor. Comput. Sci., 1995)

Spectral and spatial decorrelation of Landsat-TM data for lossless compression. - Jinfei Wang; Kaizhong Zhang; Shouwen Tang (IEEE Trans. Geosci. Remote. Sens., 1995)

Efficient Parallel Algorithms for Tree Editing Problems. - Kaizhong Zhang (CPM, 1996)

Automated Discovery of Active Motifs in Multiple RNA Secondary Structures. - Jason Tsong-Li Wang; Bruce A. Shapiro; Dennis E. Shasha; Kaizhong Zhang; Chia-Yo Chang (KDD, 1996)

Linear Cartographic Data Acquisition from Scanned Topographic Maps. - Jinfei Wang; Kaizhong Zhang (Ann. GIS, 1996)

Fast Algorithms for Minimum Matrix Norm with Application in Computer Graphics. - Shouwen Tang; Kaizhong Zhang; Xiaolin Wu 001 (Algorithmica, 1996)

A Constrained Edit Distance Between Unordered Labeled Trees. - Kaizhong Zhang (Algorithmica, 1996)

On the Complexity of Comparing Evolutionary Trees. - Jotun Hein; Tao Jiang 001; Lusheng Wang 001; Kaizhong Zhang (Discret. Appl. Math., 1996)

On the Editing Distance Between Undirected Acyclic Graphs. - Kaizhong Zhang; Jason Tsong-Li Wang; Dennis E. Shasha (Int. J. Found. Comput. Sci., 1996)

Tree pattern matching. - Kaizhong Zhang; Dennis E. Shasha (Pattern Matching Algorithms, 1997)

Automated Discovery of Active Motifs in Three Dimensional Molecules. - Xiong Wang; Jason Tsong-Li Wang; Dennis E. Shasha; Bruce A. Shapiro; Sitaram Dikshitulu; Isidore Rigoutsos; Kaizhong Zhang (KDD, 1997)

Structural Matching and Discovery in Document Databases. - Jason Tsong-Li Wang; Dennis E. Shasha; George Jyh-Shian Chang; Liam Relihan; Kaizhong Zhang; Girish Patel (SIGMOD Conference, 1997)

An Approximate Oracle for Distance in Metric Spaces. - Yanling Yang; Kaizhong Zhang; Xiong Wang; Jason Tsong-Li Wang; Dennis E. Shasha (CPM, 1998)

Efficient Parallel Algorithm for the Editing Distance between Ordered Trees. - Kaizhong Zhang (CPM, 1998)

An Algorithm for Finding the Largest Approximately Common Substructures of Two Trees. - Jason Tsong-Li Wang; Bruce A. Shapiro; Dennis E. Shasha; Kaizhong Zhang; Kathleen M. Currey (IEEE Trans. Pattern Anal. Mach. Intell., 1998)

Finding Common RNA Secondary Structures from RNA Sequences. - Zhuozhi Wang; Kaizhong Zhang (CPM, 1999)

Evaluating a Class of Distance-Mapping Algorithms for Data Mining and Clustering. - Jason Tsong-Li Wang; Xiong Wang; King-Ip (David) Lin; Dennis E. Shasha; Bruce A. Shapiro; Kaizhong Zhang (KDD, 1999)

Identifying Approximately Common Substructures in Trees Based on a Restricted Edit Distance. - Jason Tsong-Li Wang; Kaizhong Zhang; Chia-Yo Chang (Inf. Sci., 1999)

An Approximate Search Engine for Structural Databases. - Jason Tsong-Li Wang; Xiong Wang; Dennis E. Shasha; Bruce A. Shapiro; Kaizhong Zhang; Xinhuan Zheng; Qicheng Ma; Zasha Weinberg (SIGMOD Conference, 2000)

Identifying consensus of trees through alignment. - Jason Tsong-Li Wang; Kaizhong Zhang (Inf. Sci., 2000)

An Index Structure for Data Mining and Clustering. - Xiong Wang; Jason Tsong-Li Wang; King-Ip (David) Lin; Dennis E. Shasha; Bruce A. Shapiro; Kaizhong Zhang (Knowl. Inf. Syst., 2000)

Alignment between Two RNA Structures. - Zhuozhi Wang; Kaizhong Zhang (MFCS, 2001)

Edit distance between two RNA structures. - Guohui Lin; Bin Ma 002; Kaizhong Zhang (RECOMB, 2001)

A new algorithm for computing similarity between RNA structures. - Gregory D. Collins; Shu-Yun Le; Kaizhong Zhang (Inf. Sci., 2001)

Perfect Phylogenetic Networks with Recombination. - Lusheng Wang 001; Kaizhong Zhang; Louxin Zhang (J. Comput. Biol., 2001)

Finding similar consensus between trees: an algorithm and a distance hierarchy. - Jason Tsong-Li Wang; Kaizhong Zhang (Pattern Recognit., 2001)

Repetition Complexity of Words. - Lucian Ilie; Sheng Yu 001; Kaizhong Zhang (COCOON, 2002)

A wavelet transform based method for road extraction from high-resolution remotely sensed data. - Tieling Chen; Jinfei Wang; Kaizhong Zhang (IGARSS, 2002)

ATreeGrep: Approximate Searching in Unordered Trees. - Dennis E. Shasha; Jason Tsong-Li Wang; Huiyuan Shan; Kaizhong Zhang (SSDBM, 2002)

A General Edit Distance between RNA Structures. - Tao Jiang 001; Guohui Lin; Bin Ma 002; Kaizhong Zhang (J. Comput. Biol., 2002)

Finding approximate patterns in undirected acyclic graphs. - Jason Tsong-Li Wang; Kaizhong Zhang; George Jyh-Shian Chang; Dennis E. Shasha (Pattern Recognit., 2002)

Computing similarity between RNA structures. - Bin Ma 002; Lusheng Wang 001; Kaizhong Zhang (Theor. Comput. Sci., 2002)

Finding Patterns in Three-Dimensional Graphs: Algorithms and Applications to Scientific Data Mining. - Xiong Wang; Jason Tsong-Li Wang; Dennis E. Shasha; Bruce A. Shapiro; Isidore Rigoutsos; Kaizhong Zhang (IEEE Trans. Knowl. Data Eng., 2002)

Alignment between Two Multiple Alignments. - Bin Ma 002; Zhuozhi Wang; Kaizhong Zhang (CPM, 2003)

An Effective Algorithm for the Peptide De Novo Sequencing from MS/MS Spectrum. - Bin Ma 002; Kaizhong Zhang; Chengzhi Liang (CPM, 2003)

SPIDER: Software for Protein Identification from Sequence Tags with De Novo Sequencing Error. - Yonghua Han; Bin Ma 002; Kaizhong Zhang (CSB, 2004)

An Algorithm for Detecting Homologues of Known Structured RNAs in Genomes. - Shu-Yun Le; Jacob V. Maizel Jr.; Kaizhong Zhang (CSB, 2004)

Finding Conserved Well-Ordered RNA Structures In Genomic Sequences. - Shu-Yun Le; Jacob V. Maizel Jr.; Kaizhong Zhang (Int. J. Comput. Intell. Appl., 2004)

Word Complexity And Repetitions In Words. - Lucian Ilie; Sheng Yu 001; Kaizhong Zhang (Int. J. Found. Comput. Sci., 2004)

The longest common subsequence problem for arc-annotated sequences. - Tao Jiang 001; Guohui Lin; Bin Ma 002; Kaizhong Zhang (J. Discrete Algorithms, 2004)

RNA Structure Comparison and Alignment. - Kaizhong Zhang (Data Mining in Bioinformatics, 2005)

On the Longest Common Rigid Subsequence Problem. - Bin Ma 002; Kaizhong Zhang (CPM, 2005)

Applying a wavelet method and linda for extracting detailed cartographic features from high resolution images. - Jinfei Wang; Tieling Chen; Kaizhong Zhang; William Tompkinson (IGARSS, 2005)

An automata approach to match gapped sequence tags against protein database. - Yonghua Han; Bin Ma 002; Kaizhong Zhang (Int. J. Found. Comput. Sci., 2005)

Spider: Software for Protein Identification from Sequence Tags with de Novo Sequencing Error. - Yonghua Han; Bin Ma 002; Kaizhong Zhang (J. Bioinform. Comput. Biol., 2005)

Multiple Rna Structure Alignment. - Zhuozhi Wang; Kaizhong Zhang (J. Bioinform. Comput. Biol., 2005)

An effective algorithm for peptide de novo sequencing from MS/MS spectra. - Bin Ma 002; Kaizhong Zhang; Chengzhi Liang (J. Comput. Syst. Sci., 2005)

MetricMap: an embedding technique for processing distance-based queries in metric spaces. - Jason Tsong-Li Wang; Xiong Wang; Dennis E. Shasha; Kaizhong Zhang (IEEE Trans. Syst. Man Cybern. Part B, 2005)

RADAR: An InteractiveWeb-Based Toolkit for RNA Data Analysis and Research. - Mugdha Khaladkar; Vivian Bellofatto; Jason T. L. Wang; Bin Tian 002; Kaizhong Zhang (BIBE, 2006)

RNA Secondary Structure Prediction Via Energy Density Minimization. - Can Alkan; Emre Karakoç; Süleyman Cenk Sahinalp; Peter J. Unrau; H. Alexander Ebhardt; Kaizhong Zhang; Jeremy Buhler (RECOMB, 2006)

Improving the Sensitivity and Specificity of Protein Homology Search by Incorporating Predicted Secondary Structures. - Bin Ma 002; Lieyu Wu; Kaizhong Zhang (J. Bioinform. Comput. Biol., 2006)

RNA-RNA Interaction Prediction and Antisense RNA Target Search. - Can Alkan; Emre Karakoç; Joseph H. Nadeau; Süleyman Cenk Sahinalp; Kaizhong Zhang (J. Comput. Biol., 2006)

Algorithmic approaches for genome rearrangement: a review. - Zimao Li; Lusheng Wang 001; Kaizhong Zhang (IEEE Trans. Syst. Man Cybern. Syst., 2006)

Complexities and Algorithms for Glycan Structure Sequencing using Tandem Mass Spectrometry. - Baozhen Shan; Bin Ma 002; Kaizhong Zhang; Gilles A. Lajoie (APBC, 2007)

The Normalized Similarity Metric and Its Applications. - Shihyen Chen; Bin Ma 002; Kaizhong Zhang (BIBM, 2007)

An Improved Algorithm for Tree Edit Distance Incorporating Structural Linearity. - Shihyen Chen; Kaizhong Zhang (COCOON, 2007)

Locality and Gaps in RNA Comparison. - Rolf Backofen; Shihyen Chen; Danny Hermelin; Gad M. Landau; Mikhail A. Roytberg; Oren Weimann; Kaizhong Zhang (J. Comput. Biol., 2007)

Deploying Wireless Sensor Networks under Limited Mobility Constraints. - Sriram Chellappan; Wenjun Gu; Xiaole Bai; Dong Xuan; Bin Ma 002; Kaizhong Zhang (IEEE Trans. Mob. Comput., 2007)

Space Efficient Algorithms for Ordered Tree Comparison. - Lusheng Wang 001; Kaizhong Zhang (Algorithmica, 2008)

Complexities and Algorithms for Glycan Sequencing Using Tandem Mass Spectrometry. - Baozhen Shan; Bin Ma 002; Kaizhong Zhang; Gilles A. Lajoie (J. Bioinform. Comput. Biol., 2008)

A new quartet approach for reconstructing phylogenetic trees: quartet joining method. - Bin Ma 002; Lei Xin; Kaizhong Zhang (J. Comb. Optim., 2008)

Amino Acid Classification and Hash Seeds for Homology Search. - Weiming Li; Bin Ma 002; Kaizhong Zhang (BICoB, 2009)

Edge Extraction with Gradient Directions. - Tieling Chen; Jinfei Wang; Kaizhong Zhang; William Tompkinson (IPCV, 2009)

On the similarity metric and the distance metric. - Shihyen Chen; Bin Ma 002; Kaizhong Zhang (Theor. Comput. Sci., 2009)

Algorithms for Forest Pattern Matching. - Kaizhong Zhang; Yunkun Zhu (CPM, 2010)

On the Longest Common Rigid Subsequence Problem. - Nikhil Bansal 001; Moshe Lewenstein; Bin Ma 002; Kaizhong Zhang (Algorithmica, 2010)

On Comparing Two Structured RNA Multiple alignments. - Vandanaben Patel; Jason T. L. Wang; Shefali Setia; Anurag Verma; Charles D. Warden; Kaizhong Zhang (J. Bioinform. Comput. Biol., 2010)

Ancient Chinese zither (guqin) music recovery with support vector machine. - Qing Sun; Deyun Zhang; Yifeng Fan; Kaizhong Zhang; Bin Ma 002 (ACM Journal on Computing and Cultural Heritage, 2010)

Efficient filtration for similarity search with spaced k-mer neighbors. - Weiming Li; Bin Ma 002; Kaizhong Zhang (BIBM, 2012)

Algorithms for Forest Local Similarity. - Zhewei Liang; Kaizhong Zhang (COCOA, 2012)

A Method for Discovering Common Patterns from Two RNA Secondary Structures and its Application to Structural Repeat Detection. - Lei Hua; Jason T. L. Wang; Xiang Ji; Ankur Malhotra; Mugdha Khaladkar; Bruce A. Shapiro; Kaizhong Zhang (J. Bioinform. Comput. Biol., 2012)

An Effective Algorithm for Peptide de novo Sequencing from Mixture MS/MS Spectra. - Yi Liu 039; Bin Ma 002; Kaizhong Zhang; Gilles A. Lajoie (ISBRA, 2014)

Pattern Matching and Local Alignment for RNA Structures. - Shihyen Chen; Zhuozhi Wang; Kaizhong Zhang (CoRR, 2014)

An improved algorithm for tree edit distance with applications for RNA secondary structure comparison. - Shihyen Chen; Kaizhong Zhang (J. Comb. Optim., 2014)

Algorithms for local similarity between forests. - Zhewei Liang; Kaizhong Zhang (J. Comb. Optim., 2014)

Optimizing Spaced $k$-mer Neighbors for Efficient Filtration in Protein Similarity Search. - Weiming Li; Bin Ma 002; Kaizhong Zhang (IEEE ACM Trans. Comput. Biol. Bioinform., 2014)

An Approach for Matching Mixture MS/MS Spectra with a Pair of Peptide Sequences in a Protein Database. - Yi Liu 039; Weiping Sun; Gilles A. Lajoie; Bin Ma 002; Kaizhong Zhang (ISBRA, 2015)

A Novel Algorithm for Glycan de novo Sequencing Using Tandem Mass Spectrometry. - Weiping Sun; Gilles A. Lajoie; Bin Ma 002; Kaizhong Zhang (ISBRA, 2015)

Similarity metric induced metrics with application in machine learning and bioinformatics. - Kaizhong Zhang (ICCI*CC, 2016)

Spectra library assisted de novo peptide sequencing for HCD and ETD spectra pairs. - Yan Yan; Kaizhong Zhang (BMC Bioinform., 2016)

NBPMF: Novel network-based inference methods for peptide mass fingerprinting. - Zhewei Liang; Gilles A. Lajoie; Kaizhong Zhang (IEEE ICCI*CC, 2017)

DISC: DISulfide linkage Characterization from tandem mass spectra. - Yi Liu 039; Weiping Sun; Baozhen Shan; Kaizhong Zhang (Bioinform., 2017)

NBPMF: Novel Peptide Mass Fingerprinting Based on Network Inference. - Zhewei Liang; Gilles A. Lajoie; Kaizhong Zhang (Int. J. Cogn. Informatics Nat. Intell., 2017)

An Approach for Peptide Identification by De Novo Sequencing of Mixture Spectra. - Yi Liu 039; Bin Ma 002; Kaizhong Zhang; Gilles A. Lajoie (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

An approach for N-linked glycan identification from MS/MS spectra by target-decoy strategy. - Weiping Sun; Yi Liu 039; Kaizhong Zhang (Comput. Biol. Chem., 2018)

MHCherryPan. a novel model to predict the binding affinity of pan-specific class I HLA-peptide. - Xuezhi Xie; Yuanyuan Han; Kaizhong Zhang (BIBM, 2019)

Patch-Based and Tensor-Patch-Based Dimension Reduction Methods for Hyperspectral Images. - Boyu Feng; Jinfei Wang; Kaizhong Zhang (IGARSS, 2019)

An Improved Approach for N-Linked Glycan Structure Identification from HCD MS/MS Spectra. - Weiping Sun; Yi Liu 039; Gilles A. Lajoie; Bin Ma 002; Kaizhong Zhang (IEEE ACM Trans. Comput. Biol. Bioinform., 2019)

MHCherryPan: a novel pan-specific model for binding affinity prediction of class I HLA-peptide. - Xuezhi Xie; Yuanyuan Han; Kaizhong Zhang (Int. J. Data Min. Bioinform., 2020)

De novo sequencing of multiple SILAC-based tandem mass spectra. - Fang Han; Baozhen Shan; Kaizhong Zhang (ICCI*CC, 2022)