-
1
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F. et al. (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
-
2
-
-
52149106471
-
Proceedings of the international workshop on Ribosomal RNA technology, April 7-9, 2008, Bremen, Germany
-
Amaral-Zettler, L. et al. (2008) Proceedings of the international workshop on Ribosomal RNA technology, April 7-9, 2008, Bremen, Germany. Syst. Appl. Microbio., 31, 258-268.
-
(2008)
Syst. Appl. Microbio.
, vol.31
, pp. 258-268
-
-
Amaral-Zettler, L.1
-
3
-
-
75249107844
-
PyNAST: a flexible tool for aligning sequences to a template alignment
-
Caporaso, J. G. et al. (2010) PyNAST: a flexible tool for aligning sequences to a template alignment. Bioinformatics, 26, 266-267.
-
(2010)
Bioinformatics
, vol.26
, pp. 266-267
-
-
Caporaso, J.G.1
-
4
-
-
58149200948
-
The Ribosomal Database Project: improved alignments and new tools for rRNA analysis
-
Cole, J. R. et al. (2009) The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res., 37, D141-D145.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Cole, J.R.1
-
5
-
-
33746061683
-
Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB
-
DeSantis, T. Z. et al. (2006a) Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl. Environ. Microbiol., 72, 5069-5072.
-
(2006)
Appl. Environ. Microbiol.
, vol.72
, pp. 5069-5072
-
-
DeSantis, T.Z.1
-
6
-
-
33747827586
-
NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes
-
DeSantis, T. Z. et al. (2006b) NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes. Nucleic Acids Res., 34, W394-W399.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
DeSantis, T.Z.1
-
7
-
-
1242320272
-
Local homology recognition and distance measures in linear time using compressed amino acid alphabets
-
Edgar, R. C. (2004a) Local homology recognition and distance measures in linear time using compressed amino acid alphabets. Nucleic Acids Res., 32, 380-385.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 380-385
-
-
Edgar, R.C.1
-
8
-
-
13244255415
-
MUSCLE: a multiple sequence alignment method with reduced time and space complexity
-
Edgar, R. C. (2004b) 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
-
9
-
-
77957244650
-
Search and clustering orders of magnitude faster than BLAST
-
Edgar, R. C. (2010) Search and clustering orders of magnitude faster than BLAST. Bioinformatics, 26, 2460-2461.
-
(2010)
Bioinformatics
, vol.26
, pp. 2460-2461
-
-
Edgar, R.C.1
-
10
-
-
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
-
11
-
-
0020484488
-
An improved algorithm for matching biological sequences
-
Gotoh, O. (1982) An improved algorithm for matching biological sequences. J. Mol. Biol., 162, 705-8.
-
(1982)
J. Mol. Biol.
, vol.162
, pp. 705-708
-
-
Gotoh, O.1
-
12
-
-
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, 25, 2455-2465.
-
(2009)
Bioinformatics
, vol.25
, pp. 2455-2465
-
-
Kemena, C.1
Notredame, C.2
-
13
-
-
0036203448
-
Multiple sequence alignment using partial order graphs
-
Lee, C. et al. (2002) Multiple sequence alignment using partial order graphs. Bioinformatics, 18, 452-464.
-
(2002)
Bioinformatics
, vol.18
, pp. 452-464
-
-
Lee, C.1
-
14
-
-
75549091111
-
Improvements to services at the European NucleotideArchive
-
Leinonen, R. et al. (2010) Improvements to services at the European NucleotideArchive. Nucleic Acids Res., 38, D39-D45.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Leinonen, R.1
-
15
-
-
46249095233
-
Phylogeny-aware gap placement prevents errors in sequence alignment and evolutionary analysis
-
Löytynoja, A. and Goldman, N. (2008) Phylogeny-aware gap placement prevents errors in sequence alignment and evolutionary analysis. Science, 320, 1632-1635.
-
(2008)
Science
, vol.320
, pp. 1632-1635
-
-
Löytynoja, A.1
Goldman, N.2
-
16
-
-
2542523843
-
ARB: a software environment for sequence data
-
Ludwig, W. et al. (2004) ARB: a software environment for sequence data. Nucleic Acids Res., 32, 1363-1371.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1363-1371
-
-
Ludwig, W.1
-
17
-
-
0030934592
-
Effects of nucleotide sequence alignment on phylogeny estimation: a case study of 18S rDNAs of apicomplexa
-
Morrison, D. A. and Ellis, J. T. (1997) Effects of nucleotide sequence alignment on phylogeny estimation: a case study of 18S rDNAs of apicomplexa. Mol. Biol. Evol., 14, 428-441.
-
(1997)
Mol. Biol. Evol.
, vol.14
, pp. 428-441
-
-
Morrison, D.A.1
Ellis, J.T.2
-
18
-
-
84864133610
-
Infernal 1.0: RNA sequence analysis with covariance models
-
Nawrocki, E. P. and Eddy, S. R. (2008) Infernal 1. 0: RNA sequence analysis with covariance models. BMC Bioinformatics, 2008-2008.
-
(2008)
BMC Bioinformatics
, pp. 2008-12008
-
-
Nawrocki, E.P.1
Eddy, S.R.2
-
19
-
-
65549111754
-
Infernal 1.0: inference of RNA alignments
-
Nawrocki, E. P. et al. (2009) Infernal 1. 0: inference of RNA alignments. Bioinformatics, 25, 1335-1337.
-
(2009)
Bioinformatics
, vol.25
, pp. 1335-1337
-
-
Nawrocki, E.P.1
-
20
-
-
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
-
21
-
-
34548400364
-
Recent Evolutions of Multiple Sequence Alignment Algorithms
-
Notredame, C. (2007) Recent Evolutions of Multiple Sequence Alignment Algorithms. PLoS Comput. Biol., 3, 4.
-
(2007)
PLoS Comput. Biol.
, vol.3
, pp. 4
-
-
Notredame, C.1
-
22
-
-
44949202369
-
Multiple protein sequence alignment
-
Pei, J. (2008) Multiple protein sequence alignment. Current Opinion in Structural Biology, 18, 382-386.
-
(2008)
Current Opinion in Structural Biology
, vol.18
, pp. 382-386
-
-
Pei, J.1
-
23
-
-
37549027613
-
SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
-
Pruesse, E. et al. (2007) SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res., 35, 7188-7196.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 7188-7196
-
-
Pruesse, E.1
-
24
-
-
0027217833
-
The EMBL data library
-
Rice, C. M. et al. (1993) The EMBL data library. Nucleic Acids Res., 21, 2967-71.
-
(1993)
Nucleic Acids Res
, vol.21
, pp. 2967-2971
-
-
Rice, C.M.1
-
26
-
-
0032988850
-
BAliBASE: a benchmark alignment database for the evaluation of multiple alignment programs
-
Thompson, J. D. et al. (1999) BAliBASE: a benchmark alignment database for the evaluation of multiple alignment programs. Bioinformatics, 15, 87-88.
-
(1999)
Bioinformatics
, vol.15
, pp. 87-88
-
-
Thompson, J.D.1
-
27
-
-
84875255623
-
A Comprehensive Benchmark Study of Multiple Sequence Alignment Methods: Current Challenges and Future Perspectives
-
Thompson, J. D. et al. (2011) A Comprehensive Benchmark Study of Multiple Sequence Alignment Methods: Current Challenges and Future Perspectives. PLoS One, 6, 14.
-
(2011)
PLoS One
, vol.6
, pp. 14
-
-
Thompson, J.D.1
-
28
-
-
0028679709
-
On the complexity of multiple sequence alignment
-
Wang, L. and Jiang, T. (1994) On the complexity of multiple sequence alignment. J. Computat. Biol., 1, 337-348.
-
(1994)
J. Computat. Biol.
, vol.1
, pp. 337-348
-
-
Wang, L.1
Jiang, T.2
-
29
-
-
34248374330
-
An enhanced RNA alignment benchmark for sequence alignment programs
-
Wilm, A. et al. (2006) An enhanced RNA alignment benchmark for sequence alignment programs. Algorithms Mol. Biol., 1, 19.
-
(2006)
Algorithms Mol. Biol.
, vol.1
, pp. 19
-
-
Wilm, A.1
|