-
1
-
-
38549135938
-
Alignment uncertainty and genomic analysis
-
Wong,K.M., Suchard,M.A. and Huelsenbeck,J.P. (2008) Alignment uncertainty and genomic analysis. Science, 319, 473-476.
-
(2008)
Science
, vol.319
, pp. 473-476
-
-
Wong, K.M.1
Suchard, M.A.2
Huelsenbeck, J.P.3
-
3
-
-
33845727469
-
Multiple sequence alignment for phylogenetic purposes
-
Morrison,D.A. (2006) Multiple sequence alignment for phylogenetic purposes. Aust. Syst. Bot., 19, 479-539.
-
(2006)
Aust. Syst. Bot.
, vol.19
, pp. 479-539
-
-
Morrison, D.A.1
-
4
-
-
70349866695
-
Upcoming challenges for multiple sequence alignment methods in the high-throughput era
-
Kemena,C. and Notredame,C. (2009) Upcoming challenges for multiple sequence alignment methods in the high-throughput era. Bioinformatics, Vol. 25, pp. 2455-2465.
-
(2009)
Bioinformatics
, vol.25
, pp. 2455-2465
-
-
Kemena, C.1
Notredame, C.2
-
5
-
-
0029861894
-
Multiple DNA and protein sequence alignment based on segment-to-segment comparison
-
Morgenstern,B., Dress,A. and Werner,T. (1996) Multiple DNA and protein sequence alignment based on segment-to-segment comparison. Proc. Natl Acad. Sci. USA, 93, 12098-12103.
-
(1996)
Proc. Natl Acad. Sci. USA
, vol.93
, pp. 12098-12103
-
-
Morgenstern, B.1
Dress, A.2
Werner, T.3
-
6
-
-
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
-
7
-
-
23044525766
-
Speeding up the DIALIGN multiple alignment program by using the 'greedy alignment of biological sequences library' (GABIOS-LIB)
-
Abdeddaïm,S. and Morgenstern,B. (2001) Speeding up the DIALIGN multiple alignment program by using the 'greedy alignment of biological sequences library' (GABIOS-LIB). Lect. Notes Comput. Sci., 2066, 1-11.
-
(2001)
Lect. Notes Comput. Sci.
, vol.2066
, pp. 1-11
-
-
Abdeddaïm, S.1
Morgenstern, B.2
-
8
-
-
16344379173
-
Multiple sequence alignment with user-defined constraints at GOBICS
-
Morgenstern,B., Werner,N., Prohaska,S.J., Steinkamp,R., Schneider,I., Subramanian,A.R., Stadler,P.F. and Weyer-Menkhoff,J. (2005) Multiple sequence alignment with user-defined constraints at GOBICS. Bioinformatics, 21, 1271-1273.
-
(2005)
Bioinformatics
, vol.21
, pp. 1271-1273
-
-
Morgenstern, B.1
Werner, N.2
Prohaska, S.J.3
Steinkamp, R.4
Schneider, I.5
Subramanian, A.R.6
Stadler, P.F.7
Weyer-Menkhoff, J.8
-
9
-
-
34248363117
-
Multiple sequence alignment with user-defined anchor points
-
Morgenstern,B., Prohaska,S.J., Pöhler,D. and Stadler,P.F. (2006) Multiple sequence alignment with user-defined anchor points. Algorithms for Molecular Biology, 1, 6.
-
(2006)
Algorithms for Molecular Biology
, vol.1
, pp. 6
-
-
Morgenstern, B.1
Prohaska, S.J.2
Pöhler, D.3
Stadler, P.F.4
-
10
-
-
3242889413
-
The CHAOS/DIALIGN WWW server for multiple alignment of genomic sequences
-
Brudno,M., Steinkamp,R. and Morgenstern,B. (2004) The CHAOS/DIALIGN WWW server for multiple alignment of genomic sequences. Nucleic Acids Res., 32, W41-W44.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Brudno, M.1
Steinkamp, R.2
Morgenstern, B.3
-
11
-
-
23144450376
-
Multiple alignment of genomic sequences using CHAOS
-
Pöhler,D., Werner,N., Steinkamp,R. and Morgenstern,B. (2005) Multiple alignment of genomic sequences using CHAOS, DIALIGN and ABC. Nucleic Acids Res., 33, W532-W534.
-
(2005)
DIALIGN and ABC. Nucleic Acids Res.
, vol.33
-
-
Pöhler, D.1
Werner, N.2
Steinkamp, R.3
Morgenstern, B.4
-
12
-
-
77951942339
-
A min-cut algorithm for the consistency problem in multiple sequence alignment
-
Corel,E., Pitschi,F. and Morgenstern,B. (2010) A min-cut algorithm for the consistency problem in multiple sequence alignment. Bioinformatics., 26, 1015-1021.
-
(2010)
Bioinformatics
, vol.26
, pp. 1015-1021
-
-
Corel, E.1
Pitschi, F.2
Morgenstern, B.3
-
13
-
-
0027968068
-
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson,J.D., Higgins,D.G. and Gibson,T.J. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res., 22, 4673-4680.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
14
-
-
3042666256
-
Muscle: multiple sequence alignment with high accuracy and high throughput
-
Edgar,R.C. (2004) Muscle: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res., 32, 1792-1797.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
15
-
-
13244255415
-
MUSCLE: a multiple sequence alignment method with reduced time and space complexity
-
Edgar,R.C. (2004) MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics, 5, 113.
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 113
-
-
Edgar, R.C.1
-
16
-
-
13744252890
-
MAFFT version 5 improvement in accuracy of multiple sequence alignment
-
Katoh,K., Kuma,K., Toh,H. and Miyata,T. 2000 MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Res., 33, 511-518.
-
(2000)
Nucleic Acids Res.
, vol.33
, pp. 511-518
-
-
Katoh, K.1
Kuma, K.2
Toh, H.3
Miyata, T.4
-
17
-
-
14644430471
-
ProbCons: probabilistic consistency-based multiple sequence alignment
-
Do,C.B., Mahabhashyam,M.S.P., Brudno,M. and Batzoglou,S. (2005) ProbCons: probabilistic consistency-based multiple sequence alignment. Genome Res., 15, 330-340.
-
(2005)
Genome Res.
, vol.15
, pp. 330-340
-
-
Do, C.B.1
Mahabhashyam, M.S.P.2
Brudno, M.3
Batzoglou, S.4
-
18
-
-
0032892093
-
An exact solution for the segment-to-segment multiple sequence alignment problem
-
Lenhof,H.-P., Morgenstern,B. and Reinert,K. (1999) An exact solution for the segment-to-segment multiple sequence alignment problem. Bioinformatics, 15, 203-210.
-
(1999)
Bioinformatics
, vol.15
, pp. 203-210
-
-
Lenhof, H.-P.1
Morgenstern, B.2
Reinert, K.3
-
19
-
-
0003321583
-
A polyhedral approach to sequence alignment problems
-
Kececioglu,J.D., Lenhof,H.-P., Mehlhorn,K., Mutzel,P., Reinert,K. and Vingron,M. (2000) A polyhedral approach to sequence alignment problems. Discrete App. Math., 104, 143-186.
-
(2000)
Discrete App. Math.
, vol.104
, pp. 143-186
-
-
Kececioglu, J.D.1
Lenhof, H.-P.2
Mehlhorn, K.3
Mutzel, P.4
Reinert, K.5
Vingron, M.6
-
20
-
-
20444489707
-
DIALIGN-T: an improved algorithm for segment-based multiple sequence alignment
-
Subramanian,A.R., Weyer-Menkhoff,J., Kaufmann,M. and Morgenstern,B. (2005) DIALIGN-T: an improved algorithm for segment-based multiple sequence alignment. BMC Bioinformatics, 6, 66.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 66
-
-
Subramanian, A.R.1
Weyer-Menkhoff, J.2
Kaufmann, M.3
Morgenstern, B.4
-
21
-
-
0033636013
-
A space-efficient algorithm for aligning large genomic sequences
-
Morgenstern,B. (2000) A space-efficient algorithm for aligning large genomic sequences. Bioinformatics, 16, 948-949.
-
(2000)
Bioinformatics
, vol.16
, pp. 948-949
-
-
Morgenstern, B.1
-
22
-
-
31244432403
-
A simple and space-efficient fragment-chaining algorithm for alignment of DNA and protein sequences
-
Morgenstern,B. (2002) A simple and space-efficient fragment-chaining algorithm for alignment of DNA and protein sequences. Appl. Math. Lett., 15, 11-16.
-
(2002)
Appl. Math. Lett.
, vol.15
, pp. 11-16
-
-
Morgenstern, B.1
-
23
-
-
45949105543
-
DIALIGN-TX: greedy and progressive approaches for the segment-based multiple sequence alignment
-
Subramanian,A.R., Kaufmann,M. and Morgenstern,B. (2008) DIALIGN-TX: greedy and progressive approaches for the segment-based multiple sequence alignment. Algorithms Mol. Biol., 3, 6.
-
(2008)
Algorithms Mol. Biol.
, vol.3
, pp. 6
-
-
Subramanian, A.R.1
Kaufmann, M.2
Morgenstern, B.3
-
24
-
-
0023084055
-
Progressive sequence alignment as a prerequisite to correct phylogenetic trees
-
Feng,D.F. and Doolittle,R.F. (1987) Progressive sequence alignment as a prerequisite to correct phylogenetic trees. J. Mol. Evol., 25, 351-360.
-
(1987)
J. Mol. Evol.
, vol.25
, pp. 351-360
-
-
Feng, D.F.1
Doolittle, R.F.2
-
25
-
-
0024234855
-
CLUSTAL - a package for performing multiple sequence alignment on a microcomputer
-
Higgins,D.G. and Sharp,P.M. (1988) CLUSTAL - a package for performing multiple sequence alignment on a microcomputer. Gene, 73, 237-244.
-
(1988)
Gene
, vol.73
, pp. 237-244
-
-
Higgins, D.G.1
Sharp, P.M.2
-
26
-
-
0024245156
-
A flexible method to align large numbers of biological sequences
-
Taylor,W.R. (1988) A flexible method to align large numbers of biological sequences. J. Mol. Evol., 28, 161-169.
-
(1988)
J. Mol. Evol.
, vol.28
, pp. 161-169
-
-
Taylor, W.R.1
-
27
-
-
0042710151
-
A modification of the greedy algorithm for vertex cover
-
Clarkson,K.L. (1983) A modification of the greedy algorithm for vertex cover. Inf. Process. Lett., 16, 23-25.
-
(1983)
Inf. Process. Lett.
, vol.16
, pp. 23-25
-
-
Clarkson, K.L.1
-
28
-
-
0033563413
-
Two strategies for sequence comparison: profile-preprocessed and secondary structure-induced multiple alignment
-
Heringa,J. (1999) Two strategies for sequence comparison: profile-preprocessed and secondary structure-induced multiple alignment. Comput. Chem., 23, 341-364.
-
(1999)
Comput. Chem.
, vol.23
, pp. 341-364
-
-
Heringa, J.1
-
29
-
-
33846611369
-
Protein multiple alignment incorporating primary and secondary structure information
-
Kim,N.-K. and Xie,J. (2006) Protein multiple alignment incorporating primary and secondary structure information. J. Comput. Biol., 13, 75-88.
-
(2006)
J. Comput. Biol.
, vol.13
, pp. 75-88
-
-
Kim, N.-K.1
Xie, J.2
-
30
-
-
77954277272
-
Protein secondary structure prediction based on position-specific scoring matrices
-
Jones,D.T. (2004) Protein secondary structure prediction based on position-specific scoring matrices. Nucleic Acids Res., 32, W41-W44.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Jones, D.T.1
-
31
-
-
33747586510
-
Improving the accuracy of protein secondary structure prediction using structural alignment
-
Montgomerie,S., Sundararaj,S., Gallin,W.J. and Wishart,D.S. (2006) Improving the accuracy of protein secondary structure prediction using structural alignment. BMC Bioinformatics, 7, 301.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 301
-
-
Montgomerie, S.1
Sundararaj, S.2
Gallin, W.J.3
Wishart, D.S.4
-
32
-
-
0032638628
-
Least squares support vector machine classifiers
-
Suykens,J.A.K. and Vandewalle,J. (1999) Least squares support vector machine classifiers. Neural Process. Lett., 9(3), 293-300.
-
(1999)
Neural Process. Lett.
, vol.9
, Issue.3
, pp. 293-300
-
-
Suykens, J.A.K.1
Vandewalle, J.2
-
33
-
-
0033081846
-
A modified definition of Sov, a segment-based measure for protein secondary structure prediction assessment
-
Zemla,A., Venclovas,C., Fidelis,K. and Rost,B. (1999) A modified definition of Sov, a segment-based measure for protein secondary structure prediction assessment. Proteins, 34.
-
(1999)
Proteins
, pp. 34
-
-
Zemla, A.1
Venclovas, C.2
Fidelis, K.3
Rost, B.4
-
34
-
-
24644457706
-
BAliBASE 3 0: latest developments of the multiple sequence alignment benchmark
-
Thompson,J.D., Koehl,P., Ripp,R. and Poch,O. (2005) BAliBASE 3.0: latest developments of the multiple sequence alignment benchmark. Proteins, 61, 127-136.
-
(2005)
Proteins
, vol.61
, pp. 127-136
-
-
Thompson, J.D.1
Koehl, P.2
Ripp, R.3
Poch, O.4
|