-
1
-
-
0034708758
-
A whole-genome assembly of Drosophila
-
Myers,E.W., Sutton,G.G., Delcher,A.L., Dew,I.M., Fasulo,D.P. et al. (2000) A whole-genome assembly of Drosophila. Science, 287, 2196-2204.
-
(2000)
Science
, vol.287
, pp. 2196-2204
-
-
Myers, E.W.1
Sutton, G.G.2
Delcher, A.L.3
Dew, I.M.4
Fasulo, D.P.5
-
2
-
-
0035224746
-
Design of a compartmentalized shotgun assembler for the human genome
-
Huson,D.H. et al. (2001) Design of a compartmentalized shotgun assembler for the human genome. Bioinformatics, 17, S132-S139.
-
(2001)
Bioinformatics
, vol.17
-
-
Huson, D.H.1
-
3
-
-
0037162885
-
Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes
-
Aparicio,S., Chapman,J., Stupka,E., Putnam,N., Chia,J.M. 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
Chapman, J.2
Stupka, E.3
Putnam, N.4
Chia, J.M.5
-
4
-
-
0036144823
-
ARACHNE: A whole-genome shotgun assembler
-
Batzoglou,S., Jaffe,D., Stanley,K., Butler,J., Gnerre,S., Mauceli,E., Berger,B., Mesirov,J.P. and Lander,E.S. (2002) ARACHNE: A whole-genome shotgun assembler. Genome Res., 12, 177-189.
-
(2002)
Genome Res.
, vol.12
, pp. 177-189
-
-
Batzoglou, S.1
Jaffe, D.2
Stanley, K.3
Butler, J.4
Gnerre, S.5
Mauceli, E.6
Berger, B.7
Mesirov, J.P.8
Lander, E.S.9
-
5
-
-
0141853948
-
PCAP: A whole-genome assembly program
-
Huang,X., Wang,J., Aluru,S., Yang,S.-P. and Hillier,L. (2003) PCAP: A whole-genome assembly program,. Genome Res., 13, 2164-2170.
-
(2003)
Genome Res.
, vol.13
, pp. 2164-2170
-
-
Huang, X.1
Wang, J.2
Aluru, S.3
Yang, S.-P.4
Hillier, L.5
-
6
-
-
0037267048
-
Whole-genome sequence assembly for mammalian genomes: ARACHNE 2
-
Jaffe,D.B., Butler,J., Gnerre,S., Mauceli,E., Lindblad-Toh,K., Mesirov,J.P., Zody,M.C. and Lander,E.S. (2003) Whole-genome sequence assembly for mammalian genomes: ARACHNE 2. Genome Res., 13, 91-96.
-
(2003)
Genome Res.
, vol.13
, pp. 91-96
-
-
Jaffe, D.B.1
Butler, J.2
Gnerre, S.3
Mauceli, E.4
Lindblad-Toh, K.5
Mesirov, J.P.6
Zody, M.C.7
Lander, E.S.8
-
7
-
-
0037263854
-
The Phusion assembler
-
Mullikin,J.C. and Ning,Z. (2003) The Phusion assembler. Genome Res., 13, 81-90.
-
(2003)
Genome Res.
, vol.13
, pp. 81-90
-
-
Mullikin, J.C.1
Ning, Z.2
-
8
-
-
1842717960
-
The Atlas genome assembly system
-
Havlak,P., Chen,R., Durbin,K.J., Egan,A., Ren,Y., Song,X.-Z., Weinstock,G.M. and Gibbs,R. (2004) The Atlas genome assembly system. Genome Res., 14, 721-732.
-
(2004)
Genome Res.
, vol.14
, pp. 721-732
-
-
Havlak, P.1
Chen, R.2
Durbin, K.J.3
Egan, A.4
Ren, Y.5
Song, X.-Z.6
Weinstock, G.M.7
Gibbs, R.8
-
9
-
-
0020053212
-
Efficient algorithms for folding and comparing nucleic acid sequences
-
Dumas,J.P. and Ninio,J. (1982) Efficient algorithms for folding and comparing nucleic acid sequences. Nucleic Acids Res., 10, 197-206.
-
(1982)
Nucleic Acids Res.
, vol.10
, pp. 197-206
-
-
Dumas, J.P.1
Ninio, J.2
-
10
-
-
0023989064
-
Improved tools for biological sequence comparison
-
Pearson,W.R. and Lipman,D. (1988) Improved tools for biological sequence comparison. Proc. Natl Acad. Sci. USA, 85, 2444-2448.
-
(1988)
Proc. Natl Acad. Sci. USA
, vol.85
, pp. 2444-2448
-
-
Pearson, W.R.1
Lipman, D.2
-
11
-
-
0026049278
-
An efficient algorithm for identifying matches with errors in multiple long molecular sequences
-
Leung,M.Y., Blaisdell,B.E., Burge,C. and Karlin,S. (1991) An efficient algorithm for identifying matches with errors in multiple long molecular sequences. J. Mol. Biol., 221, 1367-1378.
-
(1991)
J. Mol. Biol.
, vol.221
, pp. 1367-1378
-
-
Leung, M.Y.1
Blaisdell, B.E.2
Burge, C.3
Karlin, S.4
-
12
-
-
0027681165
-
Suffix arrays: A new method for on-line string searches
-
Manber,U. and Myers,E.W. (1993) Suffix arrays: A new method for on-line string searches. SIAM J. Comput., 22, 935-948.
-
(1993)
SIAM J. Comput.
, vol.22
, pp. 935-948
-
-
Manber, U.1
Myers, E.W.2
-
13
-
-
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
-
-
21044442250
-
Engineering a lightweight suffix array construction algorithm
-
Manzini,G. and Ferragina,P. (2004) Engineering a lightweight suffix array construction algorithm. Algorithmica, 40, 33-50.
-
(2004)
Algorithmica
, vol.40
, pp. 33-50
-
-
Manzini, G.1
Ferragina, P.2
-
16
-
-
0013087152
-
Bio-sequence comparison and applications
-
Jiang,T., Xu,Y. and Zhang,M. (eds), MIT Press, Cambridge
-
Huang,X. (2002) Bio-sequence comparison and applications. In Jiang,T., Xu,Y. and Zhang,M. (eds), Current Topics in Computational Molecular Biology. MIT Press, Cambridge, pp. 45-69.
-
(2002)
Current Topics in Computational Molecular Biology
, pp. 45-69
-
-
Huang, X.1
-
17
-
-
0035890910
-
REPuter: The manifold applications of repeat analysis on a genomic scale
-
Kurtz,S., Choudhuri,J.V., Ohlebusch,E., Schleiermacher,C., Stoye,J. and Giegerich,R. (2001) REPuter: The manifold applications of repeat analysis on a genomic scale. Nucleic Acids Res., 29, 4633-4642.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 4633-4642
-
-
Kurtz, S.1
Choudhuri, J.V.2
Ohlebusch, E.3
Schleiermacher, C.4
Stoye, J.5
Giegerich, R.6
-
18
-
-
2942538300
-
Versatile and open software for comparing large genomes
-
Kurtz,S., Phillippy,A., Delcher,A.L., Smoot,M., Shumway,M., Antonescu,C. and Salzberg,S.L. (2004) Versatile and open software for comparing large genomes. Genome Biol., 5, R12.1-R12.9.
-
(2004)
Genome Biol.
, vol.5
-
-
Kurtz, S.1
Phillippy, A.2
Delcher, A.L.3
Smoot, M.4
Shumway, M.5
Antonescu, C.6
Salzberg, S.L.7
-
19
-
-
3242889975
-
Replacing suffix trees with enhanced suffix arrays
-
Abouelhoda,M.I., Kurtz,S. and Ohlebusch,E. (2004) Replacing suffix trees with enhanced suffix arrays. J. Disc. Alg., 2, 53-86.
-
(2004)
J. Disc. Alg.
, vol.2
, pp. 53-86
-
-
Abouelhoda, M.I.1
Kurtz, S.2
Ohlebusch, E.3
-
20
-
-
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
-
21
-
-
0034764307
-
SSAHA: A fast search method for large DNA databases
-
Ning,Z., Cox,A.J. and Mullikin,J.C. (2001) SSAHA: A fast search method for large DNA databases. Genome Res., 11, 1725-1729.
-
(2001)
Genome Res.
, vol.11
, pp. 1725-1729
-
-
Ning, Z.1
Cox, A.J.2
Mullikin, J.C.3
-
22
-
-
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
-
23
-
-
0037398368
-
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., Davydov,E., Green,E.D., Sidow,A. and Batzoglou,S. (2003) 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
Green, E.D.6
Sidow, A.7
Batzoglou, S.8
-
24
-
-
0037267806
-
Human-mouse alignments with BLASTZ
-
Schwartz,S., Kent,W.J., Smit,A., Zhang,Z., Baertsch,R., Hardison,R., 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.6
Haussler, D.7
Miller, W.8
-
25
-
-
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
-
26
-
-
0037790561
-
Efficient clustering of large EST datasets on parallel computers
-
Kalyanaraman,A., Aluru,A., Kothari,S. and Brendel,V. (2003) Efficient clustering of large EST datasets on parallel computers. Nucleic Acids Res., 31, 2963-2974.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 2963-2974
-
-
Kalyanaraman, A.1
Aluru, A.2
Kothari, S.3
Brendel, V.4
|