Michael S. Waterman

Publication Activity (10 Years)

Years Active: 1979-2021
Publications (10 Years): 6

Top Topics

Geometric Interpretation

Gene Expression

Top Venues

J. Comput. Biol.

Nucleic Acids Res.

IEEE Trans. Inf. Theory

Publications

Michael S. Waterman
The Human Genome Project: the Beginning of the Beginning. Quant. Biol. 9 (1) (2021)
Bonnie Berger, Michael S. Waterman, Yun William Yu
Levenshtein Distance, Sequence Comparison and Biological Database Search. IEEE Trans. Inf. Theory 67 (6) (2021)
Christopher L. Barrett, Andrei C. Bura, Qijun He, Fenix W. D. Huang, Thomas J. X. Li, Michael S. Waterman, Christian M. Reidys
Multiscale Feedback Loops in SARS-CoV-2 Viral Evolution. J. Comput. Biol. 28 (3) (2021)
Sijie Chen, Yixin Chen, Fengzhu Sun, Michael S. Waterman, Xuegong Zhang
A new statistic for efficient detection of repetitive sequences. Bioinform. 35 (22) (2019)
Y. X. Rachel Wang, Ke Liu, Elizabeth Theusch, Jerome I Rotter, Marisa W. Medina, Michael S. Waterman, Haiyan Huang
Generalized correlation measure using count statistics for gene expression data with ordered samples. Bioinform. 34 (4) (2018)
Yang Young Lu, Kujin Tang, Jie Ren, Jed A. Fuhrman, Michael S. Waterman, Fengzhu Sun
CAFE: aCcelerated Alignment-FrEe sequence analysis. Nucleic Acids Res. 45 (Webserver-Issue) (2017)
Kai Song, Jie Ren, Gesine Reinert, Minghua Deng, Michael S. Waterman, Fengzhu Sun
New developments of alignment-free sequence comparison: measures, statistics and next-generation sequencing. Briefings Bioinform. 15 (3) (2014)
Chun-Chi Liu, Yu-Ting Tseng, Wenyuan Li, Chia-Yu Wu, Ilya Mayzus, Andrey Rzhetsky, Fengzhu Sun, Michael S. Waterman, Jeremy J. W. Chen, Preet M. Chaudhary, Joseph Loscalzo, Edward Crandall, Xianghong Jasmine Zhou
DiseaseConnect: a comprehensive web server for mechanism-based disease-disease connections. Nucleic Acids Res. 42 (Webserver-Issue) (2014)
Ehsan Behnam, Michael S. Waterman, Andrew D. Smith
A Geometric Interpretation for Local Alignment-Free Sequence Comparison. J. Comput. Biol. 20 (7) (2013)
Zhiyuan Zhai, Gesine Reinert, Kai Song, Michael S. Waterman, Yihui Luan, Fengzhu Sun
Normal and Compound Poisson Approximations for Pattern Occurrences in NGS Reads. J. Comput. Biol. 19 (6) (2012)
Lu Meng, Fengzhu Sun, Xuegong Zhang, Michael S. Waterman
Sequence Alignment as Hypothesis Testing. J. Comput. Biol. 18 (5) (2011)
Wenyuan Li, Chun-Chi Liu, Tong Zhang, Haifeng Li, Michael S. Waterman, Xianghong Jasmine Zhou
Integrative Analysis of Many Weighted Co-Expression Networks Using Tensor Computation. PLoS Comput. Biol. 7 (6) (2011)
Zhiyuan Zhai, Shih-Yen Ku, Yihui Luan, Gesine Reinert, Michael S. Waterman, Fengzhu Sun
The Power of Detecting Enriched Patterns: An HMM Approach. J. Comput. Biol. 17 (4) (2010)
Lin Wan, Gesine Reinert, Fengzhu Sun, Michael S. Waterman
Alignment-Free Sequence Comparison (II): Theoretical Power of Comparison Statistics. J. Comput. Biol. 17 (11) (2010)
Michael R. Mehan, Juan Nunez-Iglesias, Chao Dai, Michael S. Waterman, Xianghong Jasmine Zhou
An integrative modular approach to systematically predict gene-phenotype associations. BMC Bioinform. 11 (S-1) (2010)
Michael R. Mehan, Juan Nunez-Iglesias, Mrinal Kalakrishnan, Michael S. Waterman, Xianghong Jasmine Zhou
An Integrative Network Approach to Map the Transcriptome to the Phenome. J. Comput. Biol. 16 (8) (2009)
David C. Schwartz, Michael S. Waterman
New Generations: Sequencing Machines and Their Computational Challenges. J. Comput. Sci. Technol. 25 (1) (2009)
Gesine Reinert, David Chew, Fengzhu Sun, Michael S. Waterman
Alignment-Free Sequence Comparison (I): Statistics and Power. J. Comput. Biol. 16 (12) (2009)
Jong Hyun Kim, Woo-Cheol Kim, Michael S. Waterman, Sanghyun Park, Lei M. Li
HAPLOWSER: a whole-genome haplotype browser for personal genome and metagenome. Bioinform. 25 (18) (2009)
Michael Q. Zhang, Michael S. Waterman, Xuegong Zhang
The Seventh Asia Pacific Bioinformatics Conference (APBC2009). BMC Bioinform. 10 (S-1) (2009)
Michael R. Mehan, Juan Nunez-Iglesias, Mrinal Kalakrishnan, Michael S. Waterman, Xianghong Jasmine Zhou
An Integrative Network Approach to Map the Transcriptome to the Phenome. RECOMB (2008)
Fei Pan, Chi-Hsien Chiu, Sudip Pulapura, Michael R. Mehan, Juan Nunez-Iglesias, Kangyu Zhang, Kiran Kamath, Michael S. Waterman, Caleb E. Finch, Xianghong Jasmine Zhou
Gene Aging Nexus: a web database and data mining platform for microarray data on aging. Nucleic Acids Res. 35 (Database-Issue) (2007)
Xifeng Yan, Michael R. Mehan, Yu Huang, Michael S. Waterman, Philip S. Yu, Xianghong Jasmine Zhou
A graph-based approach to systematically reconstruct human transcriptional regulatory modules. ISMB/ECCB (Supplement of Bioinformatics) (2007)
Gesine Reinert, Michael S. Waterman
On the Length of the Longest Exact Position Match in a Random Sequence. IEEE ACM Trans. Comput. Biol. Bioinform. 4 (1) (2007)
Jong Hyun Kim, Michael S. Waterman, Lei M. Li
Accuracy Assessment of Diploid Consensus Sequences. IEEE ACM Trans. Comput. Biol. Bioinform. 4 (1) (2007)
Yu Huang, Haifeng Li, Haiyan Hu, Xifeng Yan, Michael S. Waterman, Haiyan Huang, Xianghong Jasmine Zhou
Systematic discovery of functional modules and context-specific functional annotation of human genome. ISMB/ECCB (Supplement of Bioinformatics) (2007)
Haifeng Li, Anton Valouev, David C. Schwartz, Michael S. Waterman, Lei M. Li
A Quantile Method for Sizing Optical Maps. J. Comput. Biol. 14 (3) (2007)
Jianjun Hu, Haifeng Li, Michael S. Waterman, Xianghong Jasmine Zhou
Integrative missing value estimation for microarray data. BMC Bioinform. 7 (2006)
Anton Valouev, Yu Zhang, David C. Schwartz, Michael S. Waterman
Refinement of optical map assemblies. Bioinform. 22 (10) (2006)
Michael S. Waterman
Whole Genome Optical Mapping. APBC (2006)
Anton Valouev, Lei Li, Yu-Chi Liu, David C. Schwartz, Yi Yang, Yu Zhang, Michael S. Waterman
Alignment of Optical Maps. J. Comput. Biol. 13 (2) (2006)
Michael S. Waterman
Stan Ulam and Computational Biology. RECOMB (2006)
Anton Valouev, Lei Li, Yu-Chi Liu, David C. Schwartz, Yi Yang, Yu Zhang, Michael S. Waterman
Alignment of Optical Maps. RECOMB (2005)
Kui Zhang, Zhaohui S. Qin, Ting Chen, Jun S. Liu, Michael S. Waterman, Fengzhu Sun
HapBlock: haplotype block partitioning and tag SNP selection software using a set of dynamic programming algorithms. Bioinform. 21 (1) (2005)
Lei M. Li, Jong Hyun Kim, Michael S. Waterman
Haplotype Reconstruction from SNP Alignment. J. Comput. Biol. 11 (2/3) (2004)
Lei M. Li, Jong Hyun Kim, Michael S. Waterman
Haplotype reconstruction from SNP alignment. RECOMB (2003)
Michael S. Waterman, Yu Zhang
Eulerian Path Methods for Multiple Sequence Alignment. CSB (2003)
Kui Zhang, Fengzhu Sun, Michael S. Waterman, Ting Chen
Dynamic programming algorithms for haplotype block partitioning: applications to human chromosome 21 haplotype data. RECOMB (2003)
Yu Zhang, Michael S. Waterman
An Eulerian Path Approach to Global Multiple Alignment for DNA Sequences. J. Comput. Biol. 10 (6) (2003)
Kui Zhang, Ting Chen, Michael S. Waterman, Zhaohui S. Qin, Jun S. Liu, Fengzhu Sun
Dynamic Programming Algorithms for Haplotype Block Partitioning and Tag SNP Selection Using Haplotype Data or Genotype Data. Computational Methods for SNPs and Haplotype Inference (2002)
Mengxiang Tang, Michael S. Waterman, Shibu Yooseph
Zinc Finger Gene Clusters and Tandem Gene Duplication. J. Comput. Biol. 9 (2) (2002)
Mengxiang Tang, Michael S. Waterman, Shibu Yooseph
Zinc finger gene clusters and tandem gene duplication. RECOMB (2001)
Pavel A. Pevzner, Haixu Tang, Michael S. Waterman
A new approach to fragment assembly in DNA sequencing. RECOMB (2001)
Gesine Reinert, Sophie Schbath, Michael S. Waterman
Probabilistic and Statistical Properties of Words: An Overview. J. Comput. Biol. 7 (1-2) (2000)
Jae Kyu Lee, Vlado Dancík, Michael S. Waterman
Estimation for Restriction Sites Observed by Optical Mapping Using Reversible-Jump Markov Chain Monte Carlo J. Comput. Biol. 5 (3) (1998)
Jae Kyu Lee, Vlado Dancík, Michael S. Waterman
Estimation for restriction sites observed by optical mapping using reversible-jump Markov chain Monte Carlo. RECOMB (1998)
George A. Komatsoulis, Michael S. Waterman
Chimeric alignment by dynamic programming: algorithm and biological uses. RECOMB (1997)
Fengzhu Sun, Gary Benson, Norman Arnheim, Michael S. Waterman
Pooling Strategies for Establishing Physical Genome Maps Using FISH. J. Comput. Biol. 4 (4) (1997)
Michael S. Waterman, Sorin Istrail, Pavel A. Pevzner
Selected Papers from RECOMB'97 - Preface. J. Comput. Biol. 4 (3) (1997)
Fengzhu Sun, Gary Benson, Norman Arnheim, Michael S. Waterman
Pooling strategies for establishing physical genome maps using FISH. RECOMB (1997)
Martin Vingron, Michael S. Waterman
Alignment Networks and Electrical Networks. Discret. Appl. Math. 71 (1-3) (1996)
Richard Arratia, Daniela Martin, Gesine Reinert, Michael S. Waterman
Poisson Process Approximation for Sequence Repeats and Sequencing by Hybridization. J. Comput. Biol. 3 (3) (1996)
Pavel A. Pevzner, Michael S. Waterman
Multiple Filtration and Approximate Pattern Matching. Algorithmica 13 (1/2) (1995)
Pavel A. Pevzner, Michael S. Waterman
Open Combinatorial Problems in Computational Molecular Biology. ISTCS (1995)
Ramana M. Idury, Michael S. Waterman
A New Algorithm for DNA Sequence Assembly. J. Comput. Biol. 2 (2) (1995)
William R. Schmitt, Michael S. Waterman
Linear Trees and RNA Secondary Structure. Discret. Appl. Math. 51 (3) (1994)
Larry Goldstein, Michael S. Waterman
Approximations to Profile Score Distributions. J. Comput. Biol. 1 (2) (1994)
Michael S. Waterman
Sequence Comparison and Statistical Significance in Molecular Biology (Abstract). ESA (1993)
Pavel A. Pevzner, Michael S. Waterman
A Fast Filtration Algorithm for the Substring Matching Problem. CPM (1993)
Pavel A. Pevzner, Michael S. Waterman
Matrix Longest Common Subsequence Problem, Duality and Hibert Bases. CPM (1992)
X. Huang, Michael S. Waterman
Dynamic programming algorithms for restriction map comparison. Comput. Appl. Biosci. 8 (5) (1992)
E. T. Chow, Tim Hunkapiller, J. Peterson, Michael S. Waterman
Biological information signal processor. ASAP (1991)
E. T. Chow, J. C. Peterson, Michael S. Waterman, Tim Hunkapiller, B. A. Zimmermann
A systolic array processor for biological information signal processing. ICS (1991)
Jerrold R. Griggs, Phil Hanlon, Andrew M. Odlyzko, Michael S. Waterman
sequences. Graphs Comb. 6 (2) (1990)
David J. Lipman, W. John Wilbur, Temple F. Smith, Michael S. Waterman
On the statistical significance of nucleic acid similarities. Nucleic Acids Res. 12 (1) (1984)
Michael S. Waterman, Temple F. Smith, H. L. Katcher
Algorithms for restriction map comparisons. Nucleic Acids Res. 12 (1) (1984)
Thomas H. Byers, Michael S. Waterman
Technical Note - Determining All Optimal and Near-Optimal Solutions when Solving Shortest Path Problems by Dynamic Programming. Oper. Res. 32 (6) (1984)
P. R. Stein, Michael S. Waterman
On some new sequences generalizing the Catalan and Motzkin numbers. Discret. Math. 26 (3) (1979)