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Webb Miller
Webb Colby Miller
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- affiliation: Penn State, University Park, USA
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2010 – 2019
- 2015
- [j62]Aakrosh Ratan, Thomas L. Olson, Thomas P. Loughran, Webb Miller:
Identification of indels in next-generation sequencing data. BMC Bioinform. 16: 42:1-42:8 (2015) - 2014
- [j61]Belinda Giardine, Joseph Borg
, Emmanouil Viennas, Cristiana Pavlidis, Kamran Moradkhani, Philippe Joly, Marina Bartsakoulia, Cathy Riemer, Webb Miller, Giannis Tzimas
Updates of the HbVar database of human hemoglobin variants and thalassemia mutations. Nucleic Acids Res. 42(Database-Issue): 1063-1069 (2014) - 2011
- [j60]Giltae Song
Evaluation of methods for detecting conversion events in gene clusters. BMC Bioinform. 12(S-1): S45 (2011) - 2010
- [j59]Aakrosh Ratan, Yu Zhang, Vanessa M. Hayes
Calling SNPs without a reference sequence. BMC Bioinform. 11: 130 (2010) - [j58]Giltae Song
CAGE: Combinatorial Analysis of Gene-Cluster Evolution. J. Comput. Biol. 17(9): 1227-1242 (2010) - [j57]Chih-Hao Hsu, Yu Zhang, Ross C. Hardison
An Effective Method for Detecting Gene Conversion Events in Whole Genomes. J. Comput. Biol. 17(9): 1281-1297 (2010) - [c25]Bernard M. E. Moret, Webb Miller, Pavel A. Pevzner, David Sankoff:
Session Introduction. Pacific Symposium on Biocomputing 2010: 1-2 - [c24]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: 43-53
2000 – 2009
- 2009
- [j56]Charles Addo-Quaye
CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets. Bioinform. 25(1): 130-131 (2009) - [j55]Yu Zhang, Giltae Song
Evolutionary History Reconstruction for Mammalian Complex Gene Clusters. J. Comput. Biol. 16(8): 1051-1070 (2009) - [c23]Bernard M. E. Moret, Webb Miller, Pavel A. Pevzner, David Sankoff:
Session Introduction. Pacific Symposium on Biocomputing 2009: 111-113 - [c22]Yu Zhang, Giltae Song, Chih-Hao Hsu, Webb Miller:
Simultaneous History Reconstruction for Complex Gene Clusters in Multiple Species. Pacific Symposium on Biocomputing 2009: 162-173 - [c21]Minmei Hou, Cathy Riemer, Piotr Berman, Ross C. Hardison, Webb Miller:
Aligning Two Genomic Sequences That Contain Duplications. RECOMB-CG 2009: 98-110 - [c20]Giltae Song
Inferring the Recent Duplication History of a Gene Cluster. RECOMB-CG 2009: 111-125 - [c19]Chih-Hao Hsu, Yu Zhang, Ross C. Hardison, Webb Miller:
Whole-Genome Analysis of Gene Conversion Events. RECOMB-CG 2009: 181-192 - 2008
- [j54]Jian Ma
DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications. J. Comput. Biol. 15(8): 1007-1027 (2008) - [j53]Donna Karolchik, Robert M. Kuhn, Robert Baertsch
The UCSC Genome Browser Database: 2008 update. Nucleic Acids Res. 36(Database-Issue): 773-779 (2008) - [j52]Jian Ma
The infinite sites model of genome evolution. Proc. Natl. Acad. Sci. USA 105(38): 14254-14261 (2008) - [j51]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): 946-962 (2008) - [c18]Yu Zhang, Giltae Song
Reconstructing the Evolutionary History of Complex Human Gene Clusters. RECOMB 2008: 29-49 - 2007
- [c17]Jian Ma, Aakrosh Ratan, Louxin Zhang, Webb Miller, David Haussler:
A Heuristic Algorithm for Reconstructing Ancestral Gene Orders with Duplications. RECOMB-CG 2007: 122-135 - [c16]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: 645-654 - 2006
- [j50]Jakob Skou Pedersen
Identification and Classification of Conserved RNA Secondary Structures in the Human Genome. PLoS Comput. Biol. 2(4) (2006) - [c15]Minmei Hou, Piotr Berman, Louxin Zhang, Webb Miller:
Controlling Size When Aligning Multiple Genomic Sequences with Duplications. WABI 2006: 138-149 - 2005
- [j49]Laura Elnitski
Improvements to GALA and dbERGE II: databases featuring genomic sequence alignment, annotation and experimental results. Nucleic Acids Res. 33(Database-Issue): 466-470 (2005) - 2004
- [j48]Ji-Ping Z. Wang, Bruce G. Lindsay, James H. Leebens-Mack
EST clustering error evaluation and correction. Bioinform. 20(17): 2973-2984 (2004) - [j47]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): 537-541 (2004) - 2003
- [j46]Vamsi Veeramachaneni, Piotr Berman, Webb Miller:
Aligning two fragmented sequences. Discret. Appl. Math. 127(1): 119-143 (2003) - [j45]Jia Li, Webb Miller:
Significance of Interspecies Matches when Evolutionary Rate Varies. J. Comput. Biol. 10(3/4): 537-554 (2003) - [j44]Scott Schwartz, Laura Elnitski
MultiPipMaker and supporting tools: alignments and analysis of multiple genomic DNA sequences. Nucleic Acids Res. 31(13): 3518-3524 (2003) - [j43]Liliana Florea, Michael McClelland
EnteriX 2003: visualization tools for genome alignments of Enterobacteriaceae. Nucleic Acids Res. 31(13): 3527-3532 (2003) - [e1]Martin Vingron, Sorin Istrail, Pavel A. Pevzner, Michael S. Waterman, Webb Miller:
Proceedings of the Sventh Annual International Conference on Computational Biology, RECOMB 2003, Berlin, Germany, April 10-13, 2003. ACM 2003, ISBN 1-58113-635-8 [contents] - 2002
- [c14]Vamsi Veeramachaneni, Piotr Berman, Webb Miller:
Aligning Two Fragmented Sequences. IPDPS 2002 - [c13]Jia Li, Webb Miller:
Significance Of inter-species matches when evolutionary rate varies. RECOMB 2002: 216-224 - 2001
- [j42]Webb Miller:
Comparison of genomic DNA sequences: solved and unsolved problems. Bioinform. 17(5): 391-397 (2001) - 2000
- [j41]Thomas Wiehe
Genome Sequence Comparisons: Hurdles in the Fast Lane to Functional Genomics. Briefings Bioinform. 1(4): 381-388 (2000) - [j40]Zheng Zhang, Scott Schwartz, Lukas Wagner, Webb Miller:
A Greedy Algorithm for Aligning DNA Sequences. J. Comput. Biol. 7(1-2): 203-214 (2000) - [j39]Piotr Berman, Zheng Zhang, Yuri I. Wolf, Eugene V. Koonin, Webb Miller:
Winnowing Sequences from a Database Search. J. Comput. Biol. 7(1-2): 293-302 (2000)
1990 – 1999
- 1999
- [j38]Zheng Zhang, Piotr Berman, Thomas Wiehe
Post-processing long pairwise alignments. Bioinform. 15(12): 1012-1019 (1999) - [c12]Piotr Berman, Zheng Zhang, Yuri I. Wolf, Eugene V. Koonin, Webb Miller:
Winnowing sequences from a database search. RECOMB 1999: 50-58 - 1998
- [j37]Zheng Zhang, Piotr Berman, Webb Miller:
Alignments without Low-Scoring Regions. J. Comput. Biol. 5(2): 197-210 (1998) - [c11]Zheng Zhang, Piotr Berman, Webb Miller:
Alignments without low-scoring regions. RECOMB 1998: 294-301 - 1997
- [j36]Kun-Mao Chao, Jinghui Zhang, James Ostell, Webb Miller:
A tool for aligning very similar DNA sequences. Comput. Appl. Biosci. 13(1): 75-80 (1997) - [j35]Zheng Zhang, William R. Pearson
Aligning a DNA Sequence with a Protein Sequence. J. Comput. Biol. 4(3): 339-349 (1997) - [c10]Gene Myers, Sanford Selznick, Zheng Zhang, Webb Miller:
Progressive multiple alignment with constraints. RECOMB 1997: 220-225 - [c9]Zheng Zhang, William R. Pearson, Webb Miller:
Aligning a DNA sequence with a protein sequence. RECOMB 1997: 337-343 - [c8]Nikola Stojanovic, Piotr Berman, Deborah Gumucio, Ross C. Hardison, Webb Miller:
A Linear-Time Algorithm for the 1-Mismatch Problem. WADS 1997: 126-135 - 1996
- [j34]Z. Zhang, B. He, Webb Miller:
Local Multiple Alignment Via Subgraph Enumeration. Discret. Appl. Math. 71(1-3): 337-365 (1996) - [j33]Martin Fürer, Webb Miller:
Alignment-to-Alignment Editing with "Move Gap" Operations. Int. J. Found. Comput. Sci. 7(1): 23-42 (1996) - [j32]Gene Myers, Sanford Selznick, Zheng Zhang, Webb Miller:
Progressive Multiple Alignment with Constraints. J. Comput. Biol. 3(4): 563-572 (1996) - 1995
- [j31]Kun-Mao Chao
Linear-Space Algorithms that Build Local Alignments from Fragments. Algorithmica 13(1/2): 106-134 (1995) - [j30]Kun-Mao Chao, Jinghui Zhang, James Ostell, Webb Miller:
A local alignment tool for very long DNA sequences. Comput. Appl. Biosci. 11(2): 147-153 (1995) - [c7]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: 62-71 - [c6]Gene Myers, Webb Miller:
Chaining Multiple-Alignment Fragments in Sub-Quadratic Time. SODA 1995: 38-47 - 1994
- [j29]Webb Miller, Mark Boguski:
A note about computing all local alignments. Comput. Appl. Biosci. 10(4): 455-456 (1994) - [j28]Webb Miller, Mark Boguski, Balaji Raghavachari, Zheng Zhang, Ross C. Hardison
Constructing Aligned Sequence Blocks. J. Comput. Biol. 1(1): 51-64 (1994) - [j27]Zheng Zhang, Balaji Raghavachari, Ross C. Hardison
Chaining Multiple-Alignment Blocks. J. Comput. Biol. 1(3): 217-226 (1994) - [j26]Kun-Mao Chao, Ross C. Hardison
Recent Developments in Linear-Space Alignment Methods: A Survey. J. Comput. Biol. 1(4): 271-291 (1994) - [c5]Xiaoqiu Huang, Pavel A. Pevzner, Webb Miller:
Parametric Recomuting in Alignment Graphs. CPM 1994: 87-101 - 1993
- [j25]Webb Miller:
Building multiple alignments from pairwise alignments. Comput. Appl. Biosci. 9(2): 169-176 (1993) - [j24]Kun-Mao Chao
Locating well-conserved regions within a pairwise alignment. Comput. Appl. Biosci. 9(4): 387-396 (1993) - 1992
- [j23]Xiaoqiu Huang, Webb Miller, Scott Schwartz, Ross C. Hardison:
Parallelization of a local similarity algorithm. Comput. Appl. Biosci. 8(2): 155-165 (1992) - [j22]Kun-Mao Chao, William R. Pearson
Aligning two sequences within a specified diagonal band. Comput. Appl. Biosci. 8(5): 481-487 (1992) - 1991
- [j21]Webb Miller, John Barr, Kenneth E. Rudd:
Improved algorithms for searching restriction maps. Comput. Appl. Biosci. 7(4): 447-456 (1991) - 1990
- [j20]Webb Miller, James Ostell, Kenneth E. Rudd:
An algorithm for searching restriction maps. Comput. Appl. Biosci. 6(3): 247-252 (1990) - [j19]Xiaoqiu Huang, Ross C. Hardison, Webb Miller:
A space-efficient algorithm for local similarities. Comput. Appl. Biosci. 6(4): 373-381 (1990) - [j18]Sun Wu, Udi Manber, Gene Myers, Webb Miller:
An O(NP) Sequence Comparison Algorithm. Inf. Process. Lett. 35(6): 317-323 (1990)
1980 – 1989
- 1989
- [j17]Eugene W. Myers, Webb Miller:
Row Replacement Algorithms for Screen Editors. ACM Trans. Program. Lang. Syst. 11(1): 33-56 (1989) - 1988
- [j16]Eugene W. Myers, Webb Miller:
Optimal alignments in linear space. Comput. Appl. Biosci. 4(1): 11-17 (1988) - [j15]Webb Miller, Eugene W. Myers:
A Simple Row-replacement Method. Softw. Pract. Exp. 18(7): 597-611 (1988) - 1986
- [j14]Webb Miller, Eugene W. Myers:
Side-effects in Automatic File Updating. Softw. Pract. Exp. 16(9): 809-820 (1986) - 1985
- [j13]Webb Miller, Eugene W. Myers:
A File Comparison Program. Softw. Pract. Exp. 15(11): 1025-1040 (1985)
1970 – 1979
- 1979
- [j12]Donald B. Johnson, Webb Miller, Brian Minnihan, Celia Wrathall:
Reducibility Among Floating-Point Graphs. J. ACM 26(4): 739-760 (1979) - 1978
- [j11]Webb Miller, David L. Spooner:
Software for Roundoff Analysis II. ACM Trans. Math. Softw. 4(4): 369-387 (1978) - [j10]Webb Miller, David L. Spooner:
Algorithm 532: Software for Roundoff Analysis [Z]. ACM Trans. Math. Softw. 4(4): 388-390 (1978) - [c4]Webb Miller:
A case for TOOLPACK. SIGNUM 1978: 68-70 - 1976
- [j9]Webb Miller:
Graph Transformations for Roundoff Analysis. SIAM J. Comput. 5(2): 204-216 (1976) - [j8]Webb Miller, David L. Spooner:
Automatic Generation of Floating-Point Test Data. IEEE Trans. Software Eng. 2(3): 223-226 (1976) - 1975
- [j7]Webb Miller:
Computer Search for Numerical Instability. J. ACM 22(4): 512-521 (1975) - [j6]Webb Miller:
Computational Complexity and Numerical Stability. SIAM J. Comput. 4(2): 97-107 (1975) - [j5]Webb Miller:
Software for Roundoff Analysis. ACM Trans. Math. Softw. 1(2): 108-128 (1975) - [c3]Webb Miller:
The Error in Interval Arithmetic. Interval Mathematics 1975: 246-250 - 1974
- [j4]Webb Miller:
Remarks on the complexity of roundoff analysis. Computing 12(2): 149-161 (1974) - [c2]Webb Miller:
Computational Complexity and Numerical Stability. STOC 1974: 317-322 - 1973
- [j3]Webb Miller:
Toward Abstract Numerical Analysis. J. ACM 20(3): 399-408 (1973) - [c1]Webb Miller:
Toward Mechanical Verification of Properties of Roundoff Error Propagation. STOC 1973: 50-58 - 1972
- [j2]Webb Miller:
Automatic a priori round-off analysis - Part I: Arithmetic Conditions. Computing 10(1-2): 97-106 (1972) - 1970
- [j1]Webb Miller:
Recursive Function Theory and Numerical Analysis. J. Comput. Syst. Sci. 4(5): 465-472 (1970)
Coauthor Index
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