-
1
-
-
23144460649
-
SOAP-based services provided by the European Bioinformatics Institute
-
Pillai, S., Silventoinen, V., Kallio, K., Senger, M., Sobhany, S., Tate, J., Velankar, S., Golovin, A., Henrick, K. et al. (2005) SOAP-based services provided by the European Bioinformatics Institute. Nucleic Acids Res., 33, 25-28.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 25-28
-
-
Pillai, S.1
Silventoinen, V.2
Kallio, K.3
Senger, M.4
Sobhany, S.5
Tate, J.6
Velankar, S.7
Golovin, A.8
Henrick, K.9
-
2
-
-
3242879009
-
Public web-based services from the European Bioinformatics Institute
-
Harte, N., Silventoinen, V., Quevillon, E., Robinson, S., Kallio, K., Fustero, X., Patel, P., Jokinen, P. and Lopez, R. (2004) Public web-based services from the European Bioinformatics Institute. Nucleic Acids Res., 32, 3-9.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 3-9
-
-
Harte, N.1
Silventoinen, V.2
Quevillon, E.3
Robinson, S.4
Kallio, K.5
Fustero, X.6
Patel, P.7
Jokinen, P.8
Lopez, R.9
-
3
-
-
33846076975
-
EMBL nucleotide sequence database in 2006
-
Kulikova, T., Akhtar, R., Aldebert, P., Althorpe, N., Andersson, M., Baldwin, A., Bates, K., Bhattacharyya, S., Bower, L. et al. (2007) EMBL nucleotide sequence database in 2006. Nucleic Acids Res., 35, 16-20.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 16-20
-
-
Kulikova, T.1
Akhtar, R.2
Aldebert, P.3
Althorpe, N.4
Andersson, M.5
Baldwin, A.6
Bates, K.7
Bhattacharyya, S.8
Bower, L.9
-
4
-
-
33846041078
-
The Universal Protein Resource (UniProt)
-
The UniProt Consortium.
-
The UniProt Consortium. (2007) The Universal Protein Resource (UniProt). Nucleic Acids Res., 35, 193-197.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 193-197
-
-
-
5
-
-
33846116032
-
New developments in the InterPro database
-
Mulder, NJ., Apweiler, R., Attwood, TK., Bairoch, A., Bateman, A., Binns, D., Bork, P., Buillard, V., Cerutti, L. et al. (2007) New developments in the InterPro database. Nucleic Acids Res., 35, 224-228.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 224-228
-
-
Mulder, N.J.1
Apweiler, R.2
Attwood, T.K.3
Bairoch, A.4
Bateman, A.5
Binns, D.6
Bork, P.7
Buillard, V.8
Cerutti, L.9
-
6
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S.F., Warren, G., Webb, M., Eugene, W.M. 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
Warren, G.2
Webb, M.3
Eugene, W.M.4
Lipman, D.J.5
-
7
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul, S.F., Madden, T.L., Schaffer, 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
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
8
-
-
0023989064
-
Improved tools for biological sequence comparison
-
Pearson, W.R. and Lipman, D.J. (1988) Improved tools for biological sequence comparison. PNAS, 85, 2444-2448.
-
(1988)
PNAS
, vol.85
, pp. 2444-2448
-
-
Pearson, W.R.1
Lipman, D.J.2
-
9
-
-
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
-
10
-
-
23144458473
-
InterProScan: Protein domains identifier
-
Quevillon, E., Silventoinen, V., Pillai, S., Harte, N., Mulder, N., Apweiler, R. and Lopez, R. (2005) InterProScan: protein domains identifier. Nucleic Acids Res., 33, W116-W120.
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Quevillon, E.1
Silventoinen, V.2
Pillai, S.3
Harte, N.4
Mulder, N.5
Apweiler, R.6
Lopez, R.7
-
11
-
-
0034069495
-
Gene Ontology: Tool for the unification of biology
-
The Gene Ontology Consortium
-
The Gene Ontology Consortium. (2000) Gene Ontology: tool for the unification of biology. Nat Genet., 25, 25-29.
-
(2000)
Nat Genet.
, vol.25
, pp. 25-29
-
-
-
12
-
-
0027968068
-
CLUSTALW: 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) CLUSTALW: 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
-
13
-
-
0034623005
-
T-Coffee: A novel method for fast and accurate multiple sequence alignment
-
Notredame, C., Higgins, D.G. and Heringa, J. (2000) T-Coffee: a novel method for fast and accurate multiple sequence alignment. J. Mol. Biol., 302, 205-217.
-
(2000)
J. Mol. Biol.
, vol.302
, pp. 205-217
-
-
Notredame, C.1
Higgins, D.G.2
Heringa, 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
-
-
13744252890
-
MAFFT version 5: Improvement in accuracy of multiple sequence alignment
-
Katoh, K., Kuma, K., Toh, H. and Miyata, T. (2005) MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Res., 33, 511-518.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 511-518
-
-
Katoh, K.1
Kuma, K.2
Toh, H.3
Miyata, T.4
-
16
-
-
29244447181
-
Kalign-an accurate and fast multiple sequence alignment algorithm
-
Lassmann, T. and Sonnhammer, E. (2005) Kalign-an accurate and fast multiple sequence alignment algorithm. BMC Bioinform., 6, 298.
-
(2005)
BMC Bioinform.
, vol.6
, pp. 298
-
-
Lassmann, T.1
Sonnhammer, E.2
-
17
-
-
0034201441
-
EMBOSS: The european molecular biology open software suite
-
Rice, P., Longden, I. and Bleasby, A. (2000) EMBOSS: The European Molecular Biology Open Software Suite. Trends Gen., 16, 276-277.
-
(2000)
Trends Gen.
, vol.16
, pp. 276-277
-
-
Rice, P.1
Longden, I.2
Bleasby, A.3
-
18
-
-
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
-
20
-
-
0033824470
-
DaliLite workbench for protein structure comparison
-
Holm, L. and Park, J. (2000) DaliLite workbench for protein structure comparison. Bioinformatics, 16, 566-567.
-
(2000)
Bioinformatics
, vol.16
, pp. 566-567
-
-
Holm, L.1
Park, J.2
-
21
-
-
84862543229
-
Extraction of biomedical facts-a modular Web server at the EBI (Whatizit)
-
Bath, UK
-
Rebholz-Schuhmann, D. and Kirsch, H. (2004) Extraction of biomedical facts-a modular Web server at the EBI (Whatizit). In Proceedings HDL 2004, Bath, UK.
-
(2004)
Proceedings HDL 2004
-
-
Rebholz-Schuhmann, D.1
Kirsch, H.2
-
22
-
-
33747833111
-
Taverna: A tool for building and running workflows of services
-
Hull, D., Wolstencroft, K., Stevens, R., Goble, C., Pocock, M., Li, P. and Oinn, T. (2006) Taverna: a tool for building and running workflows of services. Nucleic Acids Res., 34, 729-732.
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 729-732
-
-
Hull, D.1
Wolstencroft, K.2
Stevens, R.3
Goble, C.4
Pocock, M.5
Li, P.6
Oinn, T.7
-
23
-
-
4744355824
-
Triana: A graphical web service composition and execution toolkit. and Wang, I. (2004) Triana: A graphical web service composition and execution toolkit
-
San Diego, California, USA.
-
Majithia, S., Shields, M.S., Taylor, I.J. In Proceedings of the IEEE International Conference on Web Services (ICWS'04), San Diego, California, USA. 514-524.
-
(2004)
Proceedings of the IEEE International Conference on Web Services (ICWS'04)
, pp. 514-524
-
-
Majithia, S.1
Shields, M.S.2
Taylor, I.J.3
Wang, I.4
-
24
-
-
33644876253
-
Database resources of the National Center for Biotechnology Information
-
Wheeler, D.L., Barrett, T., Benson, D.A., Bryant, S.H., Canese, K., Chetvernin, V., Church, D.M., Dicuccio, M. et al. (2006) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res., 34, 173-180.
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 173-180
-
-
Wheeler, D.L.1
Barrett, T.2
Benson, D.A.3
Bryant, S.H.4
Canese, K.5
Chetvernin, V.6
Church, D.M.7
Dicuccio, M.8
-
25
-
-
0347756649
-
DDBJ in the stream of various biological data
-
Miyazaki, S., Sugawara, H., Ikeo, K., Gojobori, T. and Tateno, Y. (2004) DDBJ in the stream of various biological data. Nucleic Acids Res., 32, 31-34.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 31-34
-
-
Miyazaki, S.1
Sugawara, H.2
Ikeo, K.3
Gojobori, T.4
Tateno, Y.5
-
26
-
-
33644874819
-
From genomics to chemical genomics: New developments in Kegg
-
Kanehisa, M., Goto, S., Hattori, M., Aoki-Kinoshita, K.F., Itoh, M., Kawashima, S., Katayama, T., Araki, M. and Hirakawa, M. (2006)From genomics to chemical genomics: new developments in Kegg. Nucleic Acids Res., 34, 354-357.
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 354-357
-
-
Kanehisa, M.1
Goto, S.2
Hattori, M.3
Aoki-Kinoshita, K.F.4
Itoh, M.5
Kawashima, S.6
Katayama, T.7
Araki, M.8
Hirakawa, M.9
-
28
-
-
27244434525
-
BioMOBY successfully integrates distributed heterogeneous bioinformatics web services
-
Wilkinson, M., Schoof, H., Ernst, R. and Haase, D. (2005) BioMOBY successfully integrates distributed heterogeneous bioinformatics web services. The PlaNet Exemplar Case Plant Physiol., 138, 5-17.
-
(2005)
The PlaNet Exemplar Case Plant Physiol.
, vol.138
, pp. 5-17
-
-
Wilkinson, M.1
Schoof, H.2
Ernst, R.3
Haase, D.4
-
29
-
-
0037245913
-
Bind: The biomolecular interaction network database
-
Bader, G.D., Betel, D. and Hogue, C.W. (2003) Bind: the biomolecular interaction network database. Nucleic Acids Res., 31, 248-250.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 248-250
-
-
Bader, G.D.1
Betel, D.2
Hogue, C.W.3
-
30
-
-
13444304365
-
Integr8 and Genome Reviews: Integrated views of complete genomes and proteomes
-
Kersey, P., Bower, L., Morris, L., Horne, A., Petryszak, R., Kanz, C., Kanapin, A., Das, U., Michoud, K. et al. (2005) Integr8 and Genome Reviews: integrated views of complete genomes and proteomes. Nucleic Acids Res., 33, 297-302.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 297-302
-
-
Kersey, P.1
Bower, L.2
Morris, L.3
Horne, A.4
Petryszak, R.5
Kanz, C.6
Kanapin, A.7
Das, U.8
Michoud, K.9
-
31
-
-
13444262395
-
The European Bioinformatics Institute's data resources: Towards systems biology
-
Brooksbank, C., Cameron, G. and Thornton, J. (2005) The European Bioinformatics Institute's data resources: towards systems biology. Nucleic Acids Res., 33, D46-D53.
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Brooksbank, C.1
Cameron, G.2
Thornton, J.3
-
32
-
-
9144269670
-
EnsMart: A generic system for fast and flexible access to biological data
-
Kasprzyk, A., Keefe, D., Smedley, D., London, D., Spooner, W., Melsopp, C., Hammond, M., Rocca-Serra, P., Cox, T. et al. (2004) EnsMart: A generic system for fast and flexible access to biological data. Genome Res., 14, 160-169.
-
(2004)
Genome Res.
, vol.14
, pp. 160-169
-
-
Kasprzyk, A.1
Keefe, D.2
Smedley, D.3
London, D.4
Spooner, W.5
Melsopp, C.6
Hammond, M.7
Rocca-Serra, P.8
Cox, T.9
-
33
-
-
33645348241
-
The ontology lookup service, a lightweight cross-platform tool for controlled vocabulary queries
-
Cote, R.G., Jones, P., Apweiler, R. and Hermjakob, H. (2006) The ontology lookup service, a lightweight cross-platform tool for controlled vocabulary queries. BMC Bioinform., 28;7, 97.
-
(2006)
BMC Bioinform.
, vol.28
, Issue.7
, pp. 97
-
-
Cote, R.G.1
Jones, P.2
Apweiler, R.3
Hermjakob, H.4
-
34
-
-
22544441094
-
ProFunc: A server for predicting protein function from 3D structure
-
Laskowski, R.A., Watson, J.D. and Thornton, J.M. (2005) ProFunc: a server for predicting protein function from 3D structure. Nucleic Acids Res., 33, 89-93.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 89-93
-
-
Laskowski, R.A.1
Watson, J.D.2
Thornton, J.M.3
-
35
-
-
0042622252
-
ELM server: A new resource for investigating short functional sites in modular eukaryotic proteins
-
Puntervoll, P., Linding, R., Gemund, C., Chabanis-Davidson, S., Mattingsdal, M., Cameron, S., Martin, D.M.A., Ausiello, G., Brannetti, B. et al. (2003) ELM server: a new resource for investigating short functional sites in modular eukaryotic proteins. Nucleic Acids Res., 31, 3625-3630.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3625-3630
-
-
Puntervoll, P.1
Linding, R.2
Gemund, C.3
Chabanis-Davidson, S.4
Mattingsdal, M.5
Cameron, S.6
Martin, D.M.A.7
Ausiello, G.8
Brannetti, B.9
-
36
-
-
24644503098
-
Blast2GO: A universal tool for annotation, visualization and analysis in functional genomics research
-
Conesa, A., Goetz, S., Garcia, JM., Terol, J., Talon, M. and Robles, M. (2005) Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics, 21, 3674-3676.
-
(2005)
Bioinformatics
, vol.21
, pp. 3674-3676
-
-
Conesa, A.1
Goetz, S.2
Garcia, J.M.3
Terol, J.4
Talon, M.5
Robles, M.6
-
37
-
-
1342288004
-
The jalview java alignment editor
-
Clamp, M., Cuff, J., Searle, S.M. and Barton, G.J. (2004), The Jalview Java Alignment Editor,. Bioinformatics, 20, 426-427.
-
(2004)
Bioinformatics
, vol.20
, pp. 426-427
-
-
Clamp, M.1
Cuff, J.2
Searle, S.M.3
Barton, G.J.4
|