Webb Miller

87 papers A* 4A 1B 9C 1Misc 4Journal 61Unranked 7
YearRankTypeTitle / Venue / Authors
2015 J jnl
Identification of indels in next-generation sequencing data.
BMC Bioinform.
Aakrosh Ratan, Thomas L. Olson, Thomas P. Loughran, Webb Miller
2014 J jnl
Updates of the HbVar database of human hemoglobin variants and thalassemia mutations.
Nucleic Acids Res.
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
2011 J jnl
Evaluation of methods for detecting conversion events in gene clusters.
BMC Bioinform.
Giltae Song, Chih-Hao Hsu, Cathy Riemer, Webb Miller
2010 J jnl
An Effective Method for Detecting Gene Conversion Events in Whole Genomes.
J. Comput. Biol.
Chih-Hao Hsu, Yu Zhang, Ross C. Hardison, Eric D. Green, Webb Miller
2010 J jnl
CAGE: Combinatorial Analysis of Gene-Cluster Evolution.
J. Comput. Biol.
Giltae Song, Louxin Zhang, Tomás Vinar, Webb Miller
2010 J jnl
Calling SNPs without a reference sequence.
BMC Bioinform.
Aakrosh Ratan, Yu Zhang, Vanessa M. Hayes, Stephan C. Schuster, Webb Miller
2010 Misc conf
Optimization Methods for Selecting Founder Populations for Captive Breeding of Endangered Species.
Pacific Symposium on Biocomputing
Webb Miller, Stephen J. Wright, Yu Zhang, Stephan C. Schuster, Vanessa M. Hayes
2010 Misc conf
Session Introduction.
Pacific Symposium on Biocomputing
Bernard M. E. Moret, Webb Miller, Pavel A. Pevzner, David Sankoff
2009 — conf
Aligning Two Genomic Sequences That Contain Duplications.
RECOMB-CG
Minmei Hou, Cathy Riemer, Piotr Berman, Ross C. Hardison, Webb Miller
2009 J jnl
CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets.
Bioinform.
Charles Addo-Quaye, Webb Miller, Michael J. Axtell
2009 J jnl
Evolutionary History Reconstruction for Mammalian Complex Gene Clusters.
J. Comput. Biol.
Yu Zhang, Giltae Song, Tomás Vinar, Eric D. Green, Adam C. Siepel, Webb Miller
2009 — conf
Inferring the Recent Duplication History of a Gene Cluster.
RECOMB-CG
Giltae Song, Louxin Zhang, Tomás Vinar, Webb Miller
2009 Misc conf
Session Introduction.
Pacific Symposium on Biocomputing
Bernard M. E. Moret, Webb Miller, Pavel A. Pevzner, David Sankoff
2009 Misc conf
Simultaneous History Reconstruction for Complex Gene Clusters in Multiple Species.
Pacific Symposium on Biocomputing
Yu Zhang, Giltae Song, Chih-Hao Hsu, Webb Miller
2009 — conf
Whole-Genome Analysis of Gene Conversion Events.
RECOMB-CG
Chih-Hao Hsu, Yu Zhang, Ross C. Hardison, Webb Miller
2008 J jnl
Approximating the Spanning Star Forest Problem and Its Application to Genomic Sequence Alignment.
SIAM J. Comput.
C. Thach Nguyen, Jian Shen, Minmei Hou, Li Sheng, Webb Miller, Louxin Zhang
2008 J jnl
DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications.
J. Comput. Biol.
Jian Ma, Aakrosh Ratan, Brian J. Raney, Bernard B. Suh, Louxin Zhang, Webb Miller, David Haussler
2008 B conf
Reconstructing the Evolutionary History of Complex Human Gene Clusters.
RECOMB
Yu Zhang, Giltae Song, Tomás Vinar, Eric D. Green, Adam C. Siepel, Webb Miller
2008 J jnl
The UCSC Genome Browser Database: 2008 update.
Nucleic Acids Res.
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
2008 J jnl
The infinite sites model of genome evolution.
Proc. Natl. Acad. Sci. USA
Jian Ma, Aakrosh Ratan, Brian J. Raney, Bernard B. Suh, Webb Miller, David Haussler
2007 — conf
A Heuristic Algorithm for Reconstructing Ancestral Gene Orders with Duplications.
RECOMB-CG
Jian Ma, Aakrosh Ratan, Louxin Zhang, Webb Miller, David Haussler
2007 A* conf
Approximating the spanning star forest problem and its applications to genomic sequence alignment.
SODA
C. Thach Nguyen, Jian Shen, Minmei Hou, Li Sheng, Webb Miller, Louxin Zhang
2006 C conf
Controlling Size When Aligning Multiple Genomic Sequences with Duplications.
WABI
Minmei Hou, Piotr Berman, Louxin Zhang, Webb Miller
2006 J jnl
Identification and Classification of Conserved RNA Secondary Structures in the Human Genome.
PLoS Comput. Biol.
Jakob Skou Pedersen, Gill Bejerano, Adam C. Siepel, Kate R. Rosenbloom, Kerstin Lindblad-Toh, Eric S. Lander, Jim Kent, Webb Miller, David Haussler
2005 J jnl
Improvements to GALA and dbERGE II: databases featuring genomic sequence alignment, annotation and experimental results.
Nucleic Acids Res.
Laura Elnitski, Belinda Giardine, Prachi Shah, Yi Zhang, Cathy Riemer, Matthew T. Weirauch, Richard Burhans, Webb Miller, Ross C. Hardison
2004 J jnl
Improvements in the HbVar database of human hemoglobin variants and thalassemia mutations for population and sequence variation studies.
Nucleic Acids Res.
George P. Patrinos, Belinda Giardine, Cathy Riemer, Webb Miller, David H. K. Chui, Nicholas P. Anagnou, Henri Wajcman, Ross C. Hardison
2003 J jnl
Aligning two fragmented sequences.
Discret. Appl. Math.
Vamsi Veeramachaneni, Piotr Berman, Webb Miller
2003 J jnl
EnteriX 2003: visualization tools for genome alignments of Enterobacteriaceae.
Nucleic Acids Res.
Liliana Florea, Michael McClelland, Cathy Riemer, Scott Schwartz, Webb Miller
2003 J jnl
MultiPipMaker and supporting tools: alignments and analysis of multiple genomic DNA sequences.
Nucleic Acids Res.
Scott Schwartz, Laura Elnitski, Mei Li, Matthew T. Weirauch, Cathy Riemer, Arian Smit, Eric D. Green, Ross C. Hardison, Webb Miller
2003 B ed.
Proceedings of the Sventh Annual International Conference on Computational Biology, RECOMB 2003, Berlin, Germany, April 10-13, 2003
RECOMB
Martin Vingron, Sorin Istrail, Pavel A. Pevzner, Michael S. Waterman, Webb Miller
2003 J jnl
Significance of Interspecies Matches when Evolutionary Rate Varies.
J. Comput. Biol.
Jia Li, Webb Miller
2002 A conf
Aligning Two Fragmented Sequences.
IPDPS
Vamsi Veeramachaneni, Piotr Berman, Webb Miller
2002 B conf
Significance Of inter-species matches when evolutionary rate varies.
RECOMB
Jia Li, Webb Miller
2001 J jnl
Comparison of genomic DNA sequences: solved and unsolved problems.
Bioinform.
Webb Miller
2000 J jnl
A Greedy Algorithm for Aligning DNA Sequences.
J. Comput. Biol.
Zheng Zhang, Scott Schwartz, Lukas Wagner, Webb Miller
2000 J jnl
Genome Sequence Comparisons: Hurdles in the Fast Lane to Functional Genomics.
Briefings Bioinform.
Thomas Wiehe, Roderic Guigó, Webb Miller
2000 J jnl
Winnowing Sequences from a Database Search.
J. Comput. Biol.
Piotr Berman, Zheng Zhang, Yuri I. Wolf, Eugene V. Koonin, Webb Miller
1999 J jnl
Post-processing long pairwise alignments.
Bioinform.
Zheng Zhang, Piotr Berman, Thomas Wiehe, Webb Miller
1999 B conf
Winnowing sequences from a database search.
RECOMB
Piotr Berman, Zheng Zhang, Yuri I. Wolf, Eugene V. Koonin, Webb Miller
1998 J jnl
Alignments without Low-Scoring Regions.
J. Comput. Biol.
Zheng Zhang, Piotr Berman, Webb Miller
1998 B conf
Alignments without low-scoring regions.
RECOMB
Zheng Zhang, Piotr Berman, Webb Miller
1997 B conf
A Linear-Time Algorithm for the 1-Mismatch Problem.
WADS
Nikola Stojanovic, Piotr Berman, Deborah Gumucio, Ross C. Hardison, Webb Miller
1997 J jnl
A tool for aligning very similar DNA sequences.
Comput. Appl. Biosci.
Kun-Mao Chao, Jinghui Zhang, James Ostell, Webb Miller
1997 J jnl
Aligning a DNA Sequence with a Protein Sequence.
J. Comput. Biol.
Zheng Zhang, William R. Pearson, Webb Miller
1997 B conf
Aligning a DNA sequence with a protein sequence.
RECOMB
Zheng Zhang, William R. Pearson, Webb Miller
1997 B conf
Progressive multiple alignment with constraints.
RECOMB
Gene Myers, Sanford Selznick, Zheng Zhang, Webb Miller
1996 J jnl
Alignment-to-Alignment Editing with "Move Gap" Operations.
Int. J. Found. Comput. Sci.
Martin Fürer, Webb Miller
1996 J jnl
Local Multiple Alignment Via Subgraph Enumeration.
Discret. Appl. Math.
Z. Zhang, B. He, Webb Miller
1996 J jnl
Progressive Multiple Alignment with Constraints.
J. Comput. Biol.
Gene Myers, Sanford Selznick, Zheng Zhang, Webb Miller
1995 — conf
A database for globin gene expression data.
HICSS (5)
Webb Miller, Ahmed Elsherbini, Jamie Peck, Cathy Riemer, Scott Schwartz, Nikola Stojanovic, Ross C. Hardison
1995 J jnl
A local alignment tool for very long DNA sequences.
Comput. Appl. Biosci.
Kun-Mao Chao, Jinghui Zhang, James Ostell, Webb Miller
1995 A* conf
Chaining Multiple-Alignment Fragments in Sub-Quadratic Time.
SODA
Gene Myers, Webb Miller
1995 J jnl
Linear-Space Algorithms that Build Local Alignments from Fragments.
Algorithmica
Kun-Mao Chao, Webb Miller
1994 J jnl
A note about computing all local alignments.
Comput. Appl. Biosci.
Webb Miller, Mark Boguski
1994 J jnl
Chaining Multiple-Alignment Blocks.
J. Comput. Biol.
Zheng Zhang, Balaji Raghavachari, Ross C. Hardison, Webb Miller
1994 J jnl
Constructing Aligned Sequence Blocks.
J. Comput. Biol.
Webb Miller, Mark Boguski, Balaji Raghavachari, Zheng Zhang, Ross C. Hardison
1994 B conf
Parametric Recomuting in Alignment Graphs.
CPM
Xiaoqiu Huang, Pavel A. Pevzner, Webb Miller
1994 J jnl
Recent Developments in Linear-Space Alignment Methods: A Survey.
J. Comput. Biol.
Kun-Mao Chao, Ross C. Hardison, Webb Miller
1993 J jnl
Building multiple alignments from pairwise alignments.
Comput. Appl. Biosci.
Webb Miller
1993 J jnl
Locating well-conserved regions within a pairwise alignment.
Comput. Appl. Biosci.
Kun-Mao Chao, Ross C. Hardison, Webb Miller
1992 J jnl
Aligning two sequences within a specified diagonal band.
Comput. Appl. Biosci.
Kun-Mao Chao, William R. Pearson, Webb Miller
1992 J jnl
Parallelization of a local similarity algorithm.
Comput. Appl. Biosci.
Xiaoqiu Huang, Webb Miller, Scott Schwartz, Ross C. Hardison
1991 J jnl
Improved algorithms for searching restriction maps.
Comput. Appl. Biosci.
Webb Miller, John R. Barr, Kenneth E. Rudd
1990 J jnl
A space-efficient algorithm for local similarities.
Comput. Appl. Biosci.
Xiaoqiu Huang, Ross C. Hardison, Webb Miller
1990 J jnl
An O(NP) Sequence Comparison Algorithm.
Inf. Process. Lett.
Sun Wu, Udi Manber, Gene Myers, Webb Miller
1990 J jnl
An algorithm for searching restriction maps.
Comput. Appl. Biosci.
Webb Miller, James Ostell, Kenneth E. Rudd
1989 J jnl
Row Replacement Algorithms for Screen Editors.
ACM Trans. Program. Lang. Syst.
Eugene W. Myers, Webb Miller
1988 J jnl
A Simple Row-replacement Method.
Softw. Pract. Exp.
Webb Miller, Eugene W. Myers
1988 J jnl
Optimal alignments in linear space.
Comput. Appl. Biosci.
Eugene W. Myers, Webb Miller
1986 J jnl
Side-effects in Automatic File Updating.
Softw. Pract. Exp.
Webb Miller, Eugene W. Myers
1985 J jnl
A File Comparison Program.
Softw. Pract. Exp.
Webb Miller, Eugene W. Myers
1979 J jnl
Reducibility Among Floating-Point Graphs.
J. ACM
Donald B. Johnson, Webb Miller, Brian Minnihan, Celia Wrathall
1978 — conf
A case for TOOLPACK.
SIGNUM
Webb Miller
1978 J jnl
Algorithm 532: Software for Roundoff Analysis [Z].
ACM Trans. Math. Softw.
Webb Miller, David L. Spooner
1978 J jnl
Software for Roundoff Analysis II.
ACM Trans. Math. Softw.
Webb Miller, David L. Spooner
1976 J jnl
Automatic Generation of Floating-Point Test Data.
IEEE Trans. Software Eng.
Webb Miller, David L. Spooner
1976 J jnl
Graph Transformations for Roundoff Analysis.
SIAM J. Comput.
Webb Miller
1975 J jnl
Computational Complexity and Numerical Stability.
SIAM J. Comput.
Webb Miller
1975 J jnl
Computer Search for Numerical Instability.
J. ACM
Webb Miller
1975 J jnl
Software for Roundoff Analysis.
ACM Trans. Math. Softw.
Webb Miller
1975 — conf
The Error in Interval Arithmetic.
Interval Mathematics
Webb Miller
1974 A* conf
Computational Complexity and Numerical Stability
STOC
Webb Miller
1974 J jnl
Remarks on the complexity of roundoff analysis.
Computing
Webb Miller
1973 J jnl
Toward Abstract Numerical Analysis.
J. ACM
Webb Miller
1973 A* conf
Toward Mechanical Verification of Properties of Roundoff Error Propagation
STOC
Webb Miller
1972 J jnl
Automatic a priori round-off analysis - Part I: Arithmetic Conditions.
Computing
Webb Miller
1970 J jnl
Recursive Function Theory and Numerical Analysis.
J. Comput. Syst. Sci.
Webb Miller