-
1
-
-
0037162885
-
Whole genome shotgun assembly and analysis of the genome of Fugu rubripes
-
Aparicio, S. et al. (2002) Whole genome shotgun assembly and analysis of the genome of Fugu rubripes. Science, 297, 1301-1310.
-
(2002)
Science
, vol.297
, pp. 1301-1310
-
-
Aparicio, S.1
-
2
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S.F., Gish, W., Miller, W., Myers, E.W. and Lipman, D.J. (1990) Basic local alignment search tool. J. Mol. Biol., 215, 403-410.
-
(1990)
J. Mol. Biol.
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
3
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul, S.F., Madden, T.L., Schoffer, A.A., Zhang, J., Zhang, Z., Miller, W. and Lipman, D.J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schoffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
5
-
-
0033861549
-
Human and mouse gene structure: Comparative analysis and application to exon prediction
-
Batzoglou, S., Pachter, L., Mesirov, J., Berger, B. and Lander, E.S. (2000) Human and mouse gene structure: comparative analysis and application to exon prediction. Genome Res., 10, 950-958.
-
(2000)
Genome Res.
, vol.10
, pp. 950-958
-
-
Batzoglou, S.1
Pachter, L.2
Mesirov, J.3
Berger, B.4
Lander, E.S.5
-
6
-
-
0037270315
-
AVID: A global alignment program
-
Bray, N., Dubchak, I. and Pachter, L. (2003) AVID: a global alignment program. Genome Res., 13, 97-102.
-
(2003)
Genome Res.
, vol.13
, pp. 97-102
-
-
Bray, N.1
Dubchak, I.2
Pachter, L.3
-
7
-
-
0037398368
-
NISC comparative Sequencing Program, Green, E.D., Sidow, A. and Batzoglou, S. LAGAN and Multi-LAGAN: Efficient tools for large-scale multiple alignment of genomic DNA
-
Brudno, M., Do, C.B., Cooper, G.M., Kim, M.F. and Davydov, E. (2003) NISC comparative Sequencing Program, Green, E.D., Sidow, A. and Batzoglou, S. LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA. Genome Res., 13, 721-731.
-
(2003)
Genome Res.
, vol.13
, pp. 721-731
-
-
Brudno, M.1
Do, C.B.2
Cooper, G.M.3
Kim, M.F.4
Davydov, E.5
-
10
-
-
0030285740
-
Sorting permutations by block interchanges
-
Christie, D.A. (1996) Sorting permutations by block interchanges. Inf. Process. Lett., 60, 165-169.
-
(1996)
Inf. Process. Lett.
, vol.60
, pp. 165-169
-
-
Christie, D.A.1
-
11
-
-
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
-
12
-
-
0033153375
-
Alignment of whole genomes
-
Delcher, A.L., Kasif, S., Fleischman, R., Peterson, J., White, O. and Salzberg, S.L. (1999) Alignment of whole genomes. Nucleic Acids Res., 27, 2369-2376.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 2369-2376
-
-
Delcher, A.L.1
Kasif, S.2
Fleischman, R.3
Peterson, J.4
White, O.5
Salzberg, S.L.6
-
13
-
-
0036606576
-
Fast algorithms for large-scale genome alignment and comparison
-
Delcher, A.L., Phillippy, A., Carlton, J. and Salzberg, S.L. (2002) Fast algorithms for large-scale genome alignment and comparison. Nucleic Acids Res., 30, 2478-2483.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 2478-2483
-
-
Delcher, A.L.1
Phillippy, A.2
Carlton, J.3
Salzberg, S.L.4
-
14
-
-
0033799618
-
Active conservation of non-coding sequences revealed by three-way species comparisons
-
Dubchak, I., Brudno, M., Loots, G.G., Pachter, L., Mayor, C., Rubin, E.M. and Frazer, K.A. (2000) Active conservation of non-coding sequences revealed by three-way species comparisons. Genome Res., 10, 1304-1306.
-
(2000)
Genome Res.
, vol.10
, pp. 1304-1306
-
-
Dubchak, I.1
Brudno, M.2
Loots, G.G.3
Pachter, L.4
Mayor, C.5
Rubin, E.M.6
Frazer, K.A.7
-
15
-
-
0026886016
-
Sparse dynamic programming I: Linear cost functions
-
Eppstein, D., Galil, Z., Giancarlo, R. and Italiano, G.F. (1992) Sparse dynamic programming I: linear cost functions. JACM, 39, 546-567.
-
(1992)
JACM
, vol.39
, pp. 546-567
-
-
Eppstein, D.1
Galil, Z.2
Giancarlo, R.3
Italiano, G.F.4
-
16
-
-
0035864919
-
Comparative genome analysis delimits a chromosomal domain and identifies key regulatory elements in the alpha globin cluster
-
Flint, J., Tufarelli, C., Peden, J., Clark, K., Daniels, R.J., Hardison, R., Miller, W., Philipsen, S., Tan-Un, K.C., McMorrow, T. et al. (2001) Comparative genome analysis delimits a chromosomal domain and identifies key regulatory elements in the alpha globin cluster. Hum. Mol. Genet., 10, 371-382.
-
(2001)
Hum. Mol. Genet.
, vol.10
, pp. 371-382
-
-
Flint, J.1
Tufarelli, C.2
Peden, J.3
Clark, K.4
Daniels, R.J.5
Hardison, R.6
Miller, W.7
Philipsen, S.8
Tan-Un, K.C.9
McMorrow, T.10
-
17
-
-
0036110293
-
Transcriptional regulation of the stem cell leukemia gene (SCL) - Comparative analysis of five vertebrate SCL loci
-
Gottgens, B., Barton, L.M., Chapman, M.A., Sinclair, A.M., Knudsen, B., Grafham, D., Gilbert, J.G.R., Rogers, J., Bentley, D.R. and Green, A.R. (2002) Transcriptional regulation of the stem cell leukemia gene (SCL) - comparative analysis of five vertebrate SCL loci. Genome Res., 12, 749-759.
-
(2002)
Genome Res.
, vol.12
, pp. 749-759
-
-
Gottgens, B.1
Barton, L.M.2
Chapman, M.A.3
Sinclair, A.M.4
Knudsen, B.5
Grafham, D.6
Gilbert, J.G.R.7
Rogers, J.8
Bentley, D.R.9
Green, A.R.10
-
20
-
-
0026458378
-
Amino acid substitution matrices from protein blocks
-
Henikoff, S. and Henikoff, J.G. (1992) Amino acid substitution matrices from protein blocks. Proc. Natl Acad. Sci. USA, 89, 10915-10919.
-
(1992)
Proc. Natl. Acad. Sci. USA
, vol.89
, pp. 10915-10919
-
-
Henikoff, S.1
Henikoff, J.G.2
-
21
-
-
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
-
22
-
-
2042437650
-
Initial sequencing and analysis of the human genome
-
Lander, E.S. et al. (2001) Initial sequencing and analysis of the human genome. Nature, 409, 860-921.
-
(2001)
Nature
, vol.409
, pp. 860-921
-
-
Lander, E.S.1
-
23
-
-
0032945593
-
DIALIGN 2: Improvement of the segment-to-segment approach to multiple sequence alignment
-
Morgenstern, B. (1999) DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment. Bioinformatics, 15, 211-218.
-
(1999)
Bioinformatics
, vol.15
, pp. 211-218
-
-
Morgenstern, B.1
-
24
-
-
0014757386
-
A general method applicable to the search for similarities in the amino acid sequence of two proteins
-
Needleman, S.B. and Wunsch, C.D. (1970) A general method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol., 48, 443-453.
-
(1970)
J. Mol. Biol.
, vol.48
, pp. 443-453
-
-
Needleman, S.B.1
Wunsch, C.D.2
-
25
-
-
0037264074
-
Genome rearrangements in mammalian evolution: Lessons from human and mouse genomes
-
Pevzner, P. and Tesler, G. (2003) Genome rearrangements in mammalian evolution: lessons from human and mouse genomes. Genome Res., 13, 37-45.
-
(2003)
Genome Res.
, vol.13
, pp. 37-45
-
-
Pevzner, P.1
Tesler, G.2
-
26
-
-
0037267806
-
Human-mouse alignments with BLASTZ
-
Schwartz, S., Kent, W.J., Smit, A., Zhang, Z., Baertsch, R., Hardison, R.C., Haussler, D. and Miller, W. (2003) Human-mouse alignments with BLASTZ. Genome Res., 13, 103-107.
-
(2003)
Genome Res.
, vol.13
, pp. 103-107
-
-
Schwartz, S.1
Kent, W.J.2
Smit, A.3
Zhang, Z.4
Baertsch, R.5
Hardison, R.C.6
Haussler, D.7
Miller, W.8
-
27
-
-
0037022603
-
Inference of functional regions in proteins by quantification of evolutionary constraints
-
Simon, A., Stone, E.A. and Sidow, A. (2002) Inference of functional regions in proteins by quantification of evolutionary constraints. PNAS, 99, 2912-2917.
-
(2002)
PNAS
, vol.99
, pp. 2912-2917
-
-
Simon, A.1
Stone, E.A.2
Sidow, A.3
-
28
-
-
0019887799
-
Identification of common molecular subsequences
-
Smith, T.F. and Waterman, M.S. (1981) Identification of common molecular subsequences. J. Mol. Biol., 147, 195-197.
-
(1981)
J. Mol. Biol.
, vol.147
, pp. 195-197
-
-
Smith, T.F.1
Waterman, M.S.2
-
29
-
-
0030597348
-
A new approach to clustering the amino acids
-
Stanfel, L.E. (1996) A new approach to clustering the amino acids. J. Theor. Biol., 183, 195-205.
-
(1996)
J. Theor. Biol.
, vol.183
, pp. 195-205
-
-
Stanfel, L.E.1
-
30
-
-
0032891717
-
Transformation distances: A family of dissimilarity measures based on movements of segments
-
Varré, J.S., Delahaye, J.P. and Rivals, E (1999) Transformation distances: a family of dissimilarity measures based on movements of segments. Bioinformatics, 15, 194-202.
-
(1999)
Bioinformatics
, vol.15
, pp. 194-202
-
-
Varré, J.S.1
Delahaye, J.P.2
Rivals, E.3
-
31
-
-
0035895505
-
The sequence of the human genome
-
Venter, J.C. et al. (2001) The sequence of the human genome. Science, 291, 1304-1351.
-
(2001)
Science
, vol.291
, pp. 1304-1351
-
-
Venter, J.C.1
-
32
-
-
1542563409
-
Initial sequencing and comparative analysis of the mouse genome
-
Waterson, G.A. et al. (2002) Initial sequencing and comparative analysis of the mouse genome. Nature, 420, 520-562.
-
(2002)
Nature
, vol.420
, pp. 520-562
-
-
Waterson, G.A.1
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