-
1
-
-
0033555906
-
Tandem repeats finder: A program to analyze DNA sequences
-
Benson, G. 1999. Tandem repeats finder: A program to analyze DNA sequences. Nucleic Acids Res. 27: 573-580.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 573-580
-
-
Benson, G.1
-
2
-
-
0002163159
-
Breakpoint phylogenies
-
(eds. S. Miyano and T. Takagi) University Academy Press, Tokyo, Japan
-
Blanchette, M., Bourque, G., and Sankoff, D. 1997. Breakpoint phylogenies. In Genome informatics workshop (eds. S. Miyano and T. Takagi), pp. 25-34. University Academy Press, Tokyo, Japan.
-
(1997)
Genome Informatics Workshop
, pp. 25-34
-
-
Blanchette, M.1
Bourque, G.2
Sankoff, D.3
-
3
-
-
0036143403
-
Genome-scale evolution: Reconstructing gene orders in the ancestral species
-
Bourque, G. and Pevzner, P.A. 2002. Genome-scale evolution: Reconstructing gene orders in the ancestral species. Genome Res. 12: 9748-9753.
-
(2002)
Genome Res.
, vol.12
, pp. 9748-9753
-
-
Bourque, G.1
Pevzner, P.A.2
-
4
-
-
3843132934
-
The reversal median problem
-
Caprara, A. 2003. The reversal median problem. INFORMS J. Comput. 15: 93-113.
-
(2003)
INFORMS J. Comput.
, vol.15
, pp. 93-113
-
-
Caprara, A.1
-
5
-
-
0037263797
-
Strategies and tools for whole-genome alignments
-
Couronne, O., Poliakov, A., Bray, N., Ishkhanov, T., Ryaboy, D., Rubin, E., Pachter, L., and Dubchak, I. 2003. Strategies and tools for whole-genome alignments. Genome Res. 13: 73-80.
-
(2003)
Genome Res.
, vol.13
, pp. 73-80
-
-
Couronne, O.1
Poliakov, A.2
Bray, N.3
Ishkhanov, T.4
Ryaboy, D.5
Rubin, E.6
Pachter, L.7
Dubchak, I.8
-
7
-
-
0001807019
-
Transforming cabbage into turnip (polynomial algorithm for sorting signed permutations by reversals)
-
(full version appeared in J. of ACM 46: 1-27, 1999)
-
Hannenhalli, S. and Pevzner, P.A. 1995b. Transforming cabbage into turnip (polynomial algorithm for sorting signed permutations by reversals). In Proceedings of the 27th Annual ACM Symposium on the Theory of Computing, pp. 178-189. (full version appeared in J. of ACM 46: 1-27, 1999).
-
(1995)
Proceedings of the 27th Annual ACM Symposium on the Theory of Computing
, pp. 178-189
-
-
Hannenhalli, S.1
Pevzner, P.A.2
-
8
-
-
0029185212
-
Exact and approximation algorithms for the inversion distance between two permutations
-
Kececioglu, J. and Sankoff, D. 1995. Exact and approximation algorithms for the inversion distance between two permutations. Algorithmica 13: 180-210.
-
(1995)
Algorithmica
, vol.13
, pp. 180-210
-
-
Kececioglu, J.1
Sankoff, D.2
-
9
-
-
0036226603
-
BLAT - The BLAST-like alignment tool
-
Kent, W.J. 2002. BLAT - the BLAST-like alignment tool. Genome Res. 12: 656-664.
-
(2002)
Genome Res.
, vol.12
, pp. 656-664
-
-
Kent, W.J.1
-
10
-
-
0036079158
-
The Human Genome Browser at UCSC
-
Kent, W.J., Sugnet, C.W., Furey, T.S., Roskin, K.M., Pringle, T.H., Zahler, A.M., and Haussler, D. 2002. The Human Genome Browser at UCSC. Genome Res. 12: 996-1006.
-
(2002)
Genome Res.
, vol.12
, pp. 996-1006
-
-
Kent, W.J.1
Sugnet, C.W.2
Furey, T.S.3
Roskin, K.M.4
Pringle, T.H.5
Zahler, A.M.6
Haussler, D.7
-
11
-
-
0141815478
-
Evolution's cauldron: Duplication, deletion, and rearrangement in the mouse and human genomes
-
Kent, W.J., Baertsch, R., Hinrichs, A., Miller, W., and Haussler, D. 2003. Evolution's cauldron: Duplication, deletion, and rearrangement in the mouse and human genomes. Proc. Natl. Acad. Sci. 100: 11484-11489.
-
(2003)
Proc. Natl. Acad. Sci.
, vol.100
, pp. 11484-11489
-
-
Kent, W.J.1
Baertsch, R.2
Hinrichs, A.3
Miller, W.4
Haussler, D.5
-
12
-
-
0141596080
-
The dog genome: Survey sequencing and comparative analysis
-
Kirkness, E.F., Bafna, V., Halpern, A.L., Levy, S., Remington, K., Rusch, D.B., Delcher, A.L., Pop, M., Wang, W., Fraser, C.M., et al. 2003. The dog genome: Survey sequencing and comparative analysis. Science 301: 1898-1903.
-
(2003)
Science
, vol.301
, pp. 1898-1903
-
-
Kirkness, E.F.1
Bafna, V.2
Halpern, A.L.3
Levy, S.4
Remington, K.5
Rusch, D.B.6
Delcher, A.L.7
Pop, M.8
Wang, W.9
Fraser, C.M.10
-
13
-
-
0033615708
-
Four evolutionary strata on the human X chromosome
-
Lahn, B.T. and Page, D.C. 1999. Four evolutionary strata on the human X chromosome, Science 286: 964-967.
-
(1999)
Science
, vol.286
, pp. 964-967
-
-
Lahn, B.T.1
Page, D.C.2
-
14
-
-
0036202921
-
PatternHunter: Faster and more sensitive homology search
-
Ma, B., Tromp, J., and Li, M. 2002. PatternHunter: Faster and more sensitive homology search. Bioinformatics 18: 440-445.
-
(2002)
Bioinformatics
, vol.18
, pp. 440-445
-
-
Ma, B.1
Tromp, J.2
Li, M.3
-
15
-
-
0035234694
-
A new implementation and detailed study of breakpoint analysis
-
(PSB 2001), Hawaii
-
Moret, B.M.E., Wyman, S., Bader, D.A., Warnow, T., and Yan, M. 2001. A new implementation and detailed study of breakpoint analysis. In 6th Pacific Symposium on Biocomputing (PSB 2001), Hawaii, pp. 583-594.
-
(2001)
6th Pacific Symposium on Biocomputing
, pp. 583-594
-
-
Moret, B.M.E.1
Wyman, S.2
Bader, D.A.3
Warnow, T.4
Yan, M.5
-
16
-
-
84957042462
-
Inversion medians outperform breakpoint medians in phylogeny reconstruction from gene-order data
-
(Lecture Notes in Computer Science 2452) Rome, Italy
-
Moret, B.M.E., Siepel, A.C., Tang, J., and Liu, T. 2002. Inversion medians outperform breakpoint medians in phylogeny reconstruction from gene-order data. In Proceedings of the 2nd International Workshop on Algorithms in Bioinformatics (WABI'02). (Lecture Notes in Computer Science 2452), pp. 521-563, Rome, Italy.
-
(2002)
Proceedings of the 2nd International Workshop on Algorithms in Bioinformatics (WABI'02)
, pp. 521-563
-
-
Moret, B.M.E.1
Siepel, A.C.2
Tang, J.3
Liu, T.4
-
17
-
-
1842717954
-
Reconstructing the genomic architecture of mammalian ancestors using multispecies comparative maps
-
Murphy, W.J., Bourque, G., Tesler, G., Pevzner, P.A., and O'Brien, S.J. 2003. Reconstructing the genomic architecture of mammalian ancestors using multispecies comparative maps. Human Genomics 1: 30-40.
-
(2003)
Human Genomics
, vol.1
, pp. 30-40
-
-
Murphy, W.J.1
Bourque, G.2
Tesler, G.3
Pevzner, P.A.4
O'Brien, S.J.5
-
18
-
-
0000791476
-
Lengths of chromosomal segments conserved since divergence of man and mouse
-
Nadeau, J.H. and Taylor, B.A. 1984. Lengths of chromosomal segments conserved since divergence of man and mouse. Proc. Natl. Acad. Sci. 81: 814-818.
-
(1984)
Proc. Natl. Acad. Sci.
, vol.81
, pp. 814-818
-
-
Nadeau, J.H.1
Taylor, B.A.2
-
19
-
-
34547408929
-
Ancient linkage groups and frozen accidents
-
Ohno, S. 1973. Ancient linkage groups and frozen accidents. Nature 244: 259-262.
-
(1973)
Nature
, vol.244
, pp. 259-262
-
-
Ohno, S.1
-
21
-
-
0037264074
-
Genome rearrangements in mammalian evolution: Lessons from human and mouse genomic sequences
-
Pevzner, P.A. and Tesler, G. 2003a. Genome rearrangements in mammalian evolution: Lessons from human and mouse genomic sequences. Genome Res. 13: 13-26.
-
(2003)
Genome Res.
, vol.13
, pp. 13-26
-
-
Pevzner, P.A.1
Tesler, G.2
-
22
-
-
0038271921
-
Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution
-
Pevzner, P.A. and Tesler, G. 2003b. Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution. Proc. Natl. Acad. Sci. 100: 7672-7677.
-
(2003)
Proc. Natl. Acad. Sci.
, vol.100
, pp. 7672-7677
-
-
Pevzner, P.A.1
Tesler, G.2
-
23
-
-
1842684068
-
Genome sequence of the Brown Norway Rat yields insights into mammalian evolution
-
Rat Genome Sequencing Project Consortium. (in press)
-
Rat Genome Sequencing Project Consortium. 2004. Genome sequence of the Brown Norway Rat yields insights into mammalian evolution. Nature (in press).
-
(2004)
Nature
-
-
-
24
-
-
84947708594
-
The median problem for breakpoints in comparative genomics
-
Lecture Notes in Computer Science, Springer Verlag, New York
-
Sankoff, D. and Blanchette, M. 1997. The median problem for breakpoints in comparative genomics. In Computing and combinatorics. Proc. of COCOON '97, Lecture Notes in Computer Science, pp. 251-263. Springer Verlag, New York.
-
(1997)
Computing and Combinatorics. Proc. of COCOON '97
, pp. 251-263
-
-
Sankoff, D.1
Blanchette, M.2
-
25
-
-
0141817723
-
Chromosome rearrangements in evolution: From gene order to genome sequence and back
-
Sankoff, D. and Nadeau, J.H. 2003. Chromosome rearrangements in evolution: From gene order to genome sequence and back. Proc. Natl. Acad. Sci. 100: 11188-11189.
-
(2003)
Proc. Natl. Acad. Sci.
, vol.100
, pp. 11188-11189
-
-
Sankoff, D.1
Nadeau, J.H.2
-
26
-
-
0034020416
-
PipMaker - A web server for aligning two genomic DNA sequences
-
Schwartz, S., Zhang, Z., Frazer, K.A., Smit, A., Riemer, C., Bouck, J., Gibbs, R., Hardison, R., and Miller, W. 2000. PipMaker - A web server for aligning two genomic DNA sequences. Genome Res. 10: 577-586.
-
(2000)
Genome Res.
, vol.10
, pp. 577-586
-
-
Schwartz, S.1
Zhang, Z.2
Frazer, K.A.3
Smit, A.4
Riemer, C.5
Bouck, J.6
Gibbs, R.7
Hardison, R.8
Miller, W.9
-
27
-
-
84959066123
-
Finding an optimal inversion median: Experimental results
-
of Lecture Notes in Computer Science, Springer Verlag, New York
-
Siepel, A.C. and Moret, B.M.E. 2001. Finding an optimal inversion median: Experimental results. In Proceedings of the First International Workshop on Algorithms in Bioinformatics (WABI'01), Vol. 2149 of Lecture Notes in Computer Science, pp. 189-203. Springer Verlag, New York.
-
(2001)
Proceedings of the First International Workshop on Algorithms in Bioinformatics (WABI'01)
, vol.2149
, pp. 189-203
-
-
Siepel, A.C.1
Moret, B.M.E.2
-
28
-
-
0037417891
-
Placental mammal diversification and the Cretaceous-Tertiary boundary
-
Springer, M.S., Murphy, W.J., Eizirik, E., and O'Brien, SJ. 2003. Placental mammal diversification and the Cretaceous-Tertiary boundary. Proc. Natl. Acad. Sci. 100: 1056-1061.
-
(2003)
Proc. Natl. Acad. Sci.
, vol.100
, pp. 1056-1061
-
-
Springer, M.S.1
Murphy, W.J.2
Eizirik, E.3
O'Brien, S.J.4
-
29
-
-
0038724830
-
Reciprocal chromosome painting shows that squirrels, unlike murid rodents, have a highly conserved genome organization
-
Stanyon, R., Stone, G., Garcia, M., and Froenicke, L. 2003. Reciprocal chromosome painting shows that squirrels, unlike murid rodents, have a highly conserved genome organization. Genomics 82: 245-249.
-
(2003)
Genomics
, vol.82
, pp. 245-249
-
-
Stanyon, R.1
Stone, G.2
Garcia, M.3
Froenicke, L.4
-
30
-
-
0038658640
-
Efficient algorithms for multichromosomal genome rearrangements
-
Tesler, G. 2002a. Efficient algorithms for multichromosomal genome rearrangements. J. Comp. Sys. Sci. 65: 587-609.
-
(2002)
J. Comp. Sys. Sci.
, vol.65
, pp. 587-609
-
-
Tesler, G.1
-
31
-
-
0036211065
-
GRIMM: Genome rearrangements web server
-
Tesler, G. 2002b. GRIMM: Genome rearrangements web server. Bioinformatics 18: 492-493.
-
(2002)
Bioinformatics
, vol.18
, pp. 492-493
-
-
Tesler, G.1
-
32
-
-
1542563409
-
Initial sequencing and comparative analysis of the mouse genome
-
Waterston, R.H., Lindblad-Toh, K., Birney, E., Rogers, J., Abril, J.F., Agarwal, P., Agarwala, R., Ainscough, R., Alexandersson, M., An, P., et al. 2002. Initial sequencing and comparative analysis of the mouse genome. Nature 420: 520-562.
-
(2002)
Nature
, vol.420
, pp. 520-562
-
-
Waterston, R.H.1
Lindblad-Toh, K.2
Birney, E.3
Rogers, J.4
Abril, J.F.5
Agarwal, P.6
Agarwala, R.7
Ainscough, R.8
Alexandersson, M.9
An, P.10
|