Webb Miller

Publication Activity (10 Years)

Years Active: 1970-2015
Publications (10 Years): 0

Top Topics

Database Management

Incremental Maintenance

Top Venues

Nucleic Acids Res.

Publications

Aakrosh Ratan, Thomas L. Olson, Thomas P. Loughran, Webb Miller
Identification of indels in next-generation sequencing data. BMC Bioinform. 16 (2015)
Belinda Giardine, Joseph Borg, Emmanouil Viennas, Cristiana Pavlidis, Kamran Moradkhani, Philippe Joly, Marina Bartsakoulia, Cathy Riemer, Webb Miller, Giannis Tzimas, Henri Wajcman, Ross C. Hardison, George P. Patrinos
Updates of the HbVar database of human hemoglobin variants and thalassemia mutations. Nucleic Acids Res. 42 (Database-Issue) (2014)
Giltae Song, Chih-Hao Hsu, Cathy Riemer, Webb Miller
Evaluation of methods for detecting conversion events in gene clusters. BMC Bioinform. 12 (S-1) (2011)
Aakrosh Ratan, Yu Zhang, Vanessa M. Hayes, Stephan C. Schuster, Webb Miller
Calling SNPs without a reference sequence. BMC Bioinform. 11 (2010)
Chih-Hao Hsu, Yu Zhang, Ross C. Hardison, Eric D. Green, Webb Miller
An Effective Method for Detecting Gene Conversion Events in Whole Genomes. J. Comput. Biol. 17 (9) (2010)
Giltae Song, Louxin Zhang, Tomás Vinar, Webb Miller
CAGE: Combinatorial Analysis of Gene-Cluster Evolution. J. Comput. Biol. 17 (9) (2010)
Bernard M. E. Moret, Webb Miller, Pavel A. Pevzner, David Sankoff
Session Introduction. Pacific Symposium on Biocomputing (2010)
Webb Miller, Stephen J. Wright, Yu Zhang, Stephan C. Schuster, Vanessa M. Hayes
Optimization Methods for Selecting Founder Populations for Captive Breeding of Endangered Species. Pacific Symposium on Biocomputing (2010)
Chih-Hao Hsu, Yu Zhang, Ross C. Hardison, Webb Miller
Whole-Genome Analysis of Gene Conversion Events. RECOMB-CG (2009)
Yu Zhang, Giltae Song, Tomás Vinar, Eric D. Green, Adam C. Siepel, Webb Miller
Evolutionary History Reconstruction for Mammalian Complex Gene Clusters. J. Comput. Biol. 16 (8) (2009)
Giltae Song, Louxin Zhang, Tomás Vinar, Webb Miller
Inferring the Recent Duplication History of a Gene Cluster. RECOMB-CG (2009)
Minmei Hou, Cathy Riemer, Piotr Berman, Ross C. Hardison, Webb Miller
Aligning Two Genomic Sequences That Contain Duplications. RECOMB-CG (2009)
Charles Addo-Quaye, Webb Miller, Michael J. Axtell
CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets. Bioinform. 25 (1) (2009)
Yu Zhang, Giltae Song, Chih-Hao Hsu, Webb Miller
Simultaneous History Reconstruction for Complex Gene Clusters in Multiple Species. Pacific Symposium on Biocomputing (2009)
Bernard M. E. Moret, Webb Miller, Pavel A. Pevzner, David Sankoff
Session Introduction. Pacific Symposium on Biocomputing (2009)
Jian Ma, Aakrosh Ratan, Brian J. Raney, Bernard B. Suh, Louxin Zhang, Webb Miller, David Haussler
DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications. J. Comput. Biol. 15 (8) (2008)
Yu Zhang, Giltae Song, Tomás Vinar, Eric D. Green, Adam C. Siepel, Webb Miller
Reconstructing the Evolutionary History of Complex Human Gene Clusters. RECOMB (2008)
Jian Ma, Aakrosh Ratan, Brian J. Raney, Bernard B. Suh, Webb Miller, David Haussler
The infinite sites model of genome evolution. Proc. Natl. Acad. Sci. USA 105 (38) (2008)
Donna Karolchik, Robert M. Kuhn, Robert Baertsch, Galt P. Barber, Hiram Clawson, Mark Diekhans, Belinda Giardine, Rachel A. Harte, Angela S. Hinrichs, Fan Hsu, Kord M. Kober, Webb Miller, Jakob Skou Pedersen, Andy Pohl, Brian J. Raney, Brooke L. Rhead, Kate R. Rosenbloom, Kayla E. Smith, Mario Stanke, Archana Thakkapallayil, Heather Trumbower, Ting Wang, Ann S. Zweig, David Haussler, W. James Kent
The UCSC Genome Browser Database: 2008 update. Nucleic Acids Res. 36 (Database-Issue) (2008)
C. Thach Nguyen, Jian Shen, Minmei Hou, Li Sheng, Webb Miller, Louxin Zhang
Approximating the Spanning Star Forest Problem and Its Application to Genomic Sequence Alignment. SIAM J. Comput. 38 (3) (2008)
C. Thach Nguyen, Jian Shen, Minmei Hou, Li Sheng, Webb Miller, Louxin Zhang
Approximating the spanning star forest problem and its applications to genomic sequence alignment. SODA (2007)
Jian Ma, Aakrosh Ratan, Louxin Zhang, Webb Miller, David Haussler
A Heuristic Algorithm for Reconstructing Ancestral Gene Orders with Duplications. RECOMB-CG (2007)
Minmei Hou, Piotr Berman, Louxin Zhang, Webb Miller
Controlling Size When Aligning Multiple Genomic Sequences with Duplications. WABI (2006)
Jakob Skou Pedersen, Gill Bejerano, Adam C. Siepel, Kate R. Rosenbloom, Kerstin Lindblad-Toh, Eric S. Lander, Jim Kent, Webb Miller, David Haussler
Identification and Classification of Conserved RNA Secondary Structures in the Human Genome. PLoS Comput. Biol. 2 (4) (2006)
Laura Elnitski, Belinda Giardine, Prachi Shah, Yi Zhang, Cathy Riemer, Matthew Weirauch, Richard Burhans, Webb Miller, Ross C. Hardison
Improvements to GALA and dbERGE II: databases featuring genomic sequence alignment, annotation and experimental results. Nucleic Acids Res. 33 (Database-Issue) (2005)
George P. Patrinos, Belinda Giardine, Cathy Riemer, Webb Miller, David H. K. Chui, Nicholas P. Anagnou, Henri Wajcman, Ross C. Hardison
Improvements in the HbVar database of human hemoglobin variants and thalassemia mutations for population and sequence variation studies. Nucleic Acids Res. 32 (Database-Issue) (2004)
Scott Schwartz, Laura Elnitski, Mei Li, Matthew Weirauch, Cathy Riemer, Arian Smit, Eric D. Green, Ross C. Hardison, Webb Miller
MultiPipMaker and supporting tools: alignments and analysis of multiple genomic DNA sequences. Nucleic Acids Res. 31 (13) (2003)
Vamsi Veeramachaneni, Piotr Berman, Webb Miller
Aligning two fragmented sequences. Discret. Appl. Math. 127 (1) (2003)
Jia Li, Webb Miller
Significance of Interspecies Matches when Evolutionary Rate Varies. J. Comput. Biol. 10 (3/4) (2003)
Liliana Florea, Michael McClelland, Cathy Riemer, Scott Schwartz, Webb Miller
EnteriX 2003: visualization tools for genome alignments of Enterobacteriaceae. Nucleic Acids Res. 31 (13) (2003)
Vamsi Veeramachaneni, Piotr Berman, Webb Miller
Aligning Two Fragmented Sequences. IPDPS (2002)
Jia Li, Webb Miller
Significance Of inter-species matches when evolutionary rate varies. RECOMB (2002)
Webb Miller
Comparison of genomic DNA sequences: solved and unsolved problems. Bioinform. 17 (5) (2001)
Piotr Berman, Zheng Zhang, Yuri I. Wolf, Eugene V. Koonin, Webb Miller
Winnowing Sequences from a Database Search. J. Comput. Biol. 7 (1-2) (2000)
Zheng Zhang, Scott Schwartz, Lukas Wagner, Webb Miller
A Greedy Algorithm for Aligning DNA Sequences. J. Comput. Biol. 7 (1-2) (2000)
Thomas Wiehe, Roderic Guigó, Webb Miller
Genome Sequence Comparisons: Hurdles in the Fast Lane to Functional Genomics. Briefings Bioinform. 1 (4) (2000)
Zheng Zhang, Piotr Berman, Thomas Wiehe, Webb Miller
Post-processing long pairwise alignments. Bioinform. 15 (12) (1999)
Piotr Berman, Zheng Zhang, Yuri I. Wolf, Eugene V. Koonin, Webb Miller
Winnowing sequences from a database search. RECOMB (1999)
Zheng Zhang, Piotr Berman, Webb Miller
Alignments without Low-Scoring Regions. J. Comput. Biol. 5 (2) (1998)
Zheng Zhang, Piotr Berman, Webb Miller
Alignments without low-scoring regions. RECOMB (1998)
Zheng Zhang, William R. Pearson, Webb Miller
Aligning a DNA sequence with a protein sequence. RECOMB (1997)
Nikola Stojanovic, Piotr Berman, Deborah Gumucio, Ross C. Hardison, Webb Miller
A Linear-Time Algorithm for the 1-Mismatch Problem. WADS (1997)
Zheng Zhang, William R. Pearson, Webb Miller
Aligning a DNA Sequence with a Protein Sequence. J. Comput. Biol. 4 (3) (1997)
Kun-Mao Chao, Jinghui Zhang, James Ostell, Webb Miller
A tool for aligning very similar DNA sequences. Comput. Appl. Biosci. 13 (1) (1997)
Gene Myers, Sanford Selznick, Zheng Zhang, Webb Miller
Progressive multiple alignment with constraints. RECOMB (1997)
Z. Zhang, B. He, Webb Miller
Local Multiple Alignment Via Subgraph Enumeration. Discret. Appl. Math. 71 (1-3) (1996)
Gene Myers, Sanford Selznick, Zheng Zhang, Webb Miller
Progressive Multiple Alignment with Constraints. J. Comput. Biol. 3 (4) (1996)
Webb Miller, Ahmed Elsherbini, Jamie Peck, Cathy Riemer, Scott Schwartz, Nikola Stojanovic, Ross C. Hardison
A database for globin gene expression data. HICSS (5) (1995)
Kun-Mao Chao, Webb Miller
Linear-Space Algorithms that Build Local Alignments from Fragments. Algorithmica 13 (1/2) (1995)
Gene Myers, Webb Miller
Chaining Multiple-Alignment Fragments in Sub-Quadratic Time. SODA (1995)
Kun-Mao Chao, Jinghui Zhang, James Ostell, Webb Miller
A local alignment tool for very long DNA sequences. Comput. Appl. Biosci. 11 (2) (1995)
Webb Miller, Mark Boguski
A note about computing all local alignments. Comput. Appl. Biosci. 10 (4) (1994)
Zheng Zhang, Balaji Raghavachari, Ross C. Hardison, Webb Miller
Chaining Multiple-Alignment Blocks. J. Comput. Biol. 1 (3) (1994)
Kun-Mao Chao, Ross C. Hardison, Webb Miller
Recent Developments in Linear-Space Alignment Methods: A Survey. J. Comput. Biol. 1 (4) (1994)
Xiaoqiu Huang, Pavel A. Pevzner, Webb Miller
Parametric Recomuting in Alignment Graphs. CPM (1994)
Webb Miller, Mark Boguski, Balaji Raghavachari, Zheng Zhang, Ross C. Hardison
Constructing Aligned Sequence Blocks. J. Comput. Biol. 1 (1) (1994)
Webb Miller
Building multiple alignments from pairwise alignments. Comput. Appl. Biosci. 9 (2) (1993)
Kun-Mao Chao, Ross C. Hardison, Webb Miller
Locating well-conserved regions within a pairwise alignment. Comput. Appl. Biosci. 9 (4) (1993)
Xiaoqiu Huang, Webb Miller, Scott Schwartz, Ross C. Hardison
Parallelization of a local similarity algorithm. Comput. Appl. Biosci. 8 (2) (1992)
Kun-Mao Chao, William R. Pearson, Webb Miller
Aligning two sequences within a specified diagonal band. Comput. Appl. Biosci. 8 (5) (1992)
Webb Miller, John Barr, Kenneth E. Rudd
Improved algorithms for searching restriction maps. Comput. Appl. Biosci. 7 (4) (1991)
Webb Miller, James Ostell, Kenneth E. Rudd
An algorithm for searching restriction maps. Comput. Appl. Biosci. 6 (3) (1990)
Xiaoqiu Huang, Ross C. Hardison, Webb Miller
A space-efficient algorithm for local similarities. Comput. Appl. Biosci. 6 (4) (1990)
Sun Wu, Udi Manber, Gene Myers, Webb Miller
An O(NP) Sequence Comparison Algorithm. Inf. Process. Lett. 35 (6) (1990)
Eugene W. Myers, Webb Miller
Row Replacement Algorithms for Screen Editors. ACM Trans. Program. Lang. Syst. 11 (1) (1989)
Webb Miller, Eugene W. Myers
A Simple Row-replacement Method. Softw. Pract. Exp. 18 (7) (1988)
Eugene W. Myers, Webb Miller
Optimal alignments in linear space. Comput. Appl. Biosci. 4 (1) (1988)
Webb Miller, Eugene W. Myers
Side-effects in Automatic File Updating. Softw. Pract. Exp. 16 (9) (1986)
Webb Miller, Eugene W. Myers
A File Comparison Program. Softw. Pract. Exp. 15 (11) (1985)
Donald B. Johnson, Webb Miller, Brian Minnihan, Celia Wrathall
Reducibility Among Floating-Point Graphs. J. ACM 26 (4) (1979)
Webb Miller, David L. Spooner
Algorithm 532: Software for Roundoff Analysis [Z]. ACM Trans. Math. Softw. 4 (4) (1978)
Webb Miller, David L. Spooner
Software for Roundoff Analysis II. ACM Trans. Math. Softw. 4 (4) (1978)
Webb Miller
A case for TOOLPACK. SIGNUM (1978)
Webb Miller, David L. Spooner
Automatic Generation of Floating-Point Test Data. IEEE Trans. Software Eng. 2 (3) (1976)
Webb Miller
Graph Transformations for Roundoff Analysis. SIAM J. Comput. 5 (2) (1976)
Webb Miller
Computer Search for Numerical Instability. J. ACM 22 (4) (1975)
Webb Miller
Computational Complexity and Numerical Stability. SIAM J. Comput. 4 (2) (1975)
Webb Miller
Software for Roundoff Analysis. ACM Trans. Math. Softw. 1 (2) (1975)
Webb Miller
The Error in Interval Arithmetic. Interval Mathematics (1975)
Webb Miller
Computational Complexity and Numerical Stability STOC (1974)
Webb Miller
Toward Mechanical Verification of Properties of Roundoff Error Propagation STOC (1973)
Webb Miller
Toward Abstract Numerical Analysis. J. ACM 20 (3) (1973)
Webb Miller
Recursive Function Theory and Numerical Analysis. J. Comput. Syst. Sci. 4 (5) (1970)