-
1
-
-
3042692995
-
Beyond Arabidopsis Translational biology meets evolutionary developmental biology
-
Irish, V.F. and Benfey, P.N. (2004) Beyond Arabidopsis Translational biology meets evolutionary developmental biology. Plant Physiol., 135, 611-614.
-
(2004)
Plant Physiol
, vol.135
, pp. 611-614
-
-
Irish, V.F.1
Benfey, P.N.2
-
2
-
-
84907150192
-
The map-based sequence of the rice genome
-
IRGSP
-
IRGSP. (2005) The map-based sequence of the rice genome. Nature, 436, 793-800.
-
(2005)
Nature
, vol.436
, pp. 793-800
-
-
-
3
-
-
0034649566
-
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
-
AGI
-
AGI. (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature, 408, 796-815.
-
(2000)
Nature
, vol.408
, pp. 796-815
-
-
-
4
-
-
0038518196
-
Phylogenomics: Intersection of evolution and genomics
-
Eisen, J.A. and Fraser, C.M. (2003) Phylogenomics: Intersection of evolution and genomics. Science, 300, 1706-1707,
-
(2003)
Science
, vol.300
, pp. 1706-1707
-
-
Eisen, J.A.1
Fraser, C.M.2
-
5
-
-
38549116578
-
-
Enright, A.J., Van Dongen, S. and Ouzounis C.A. (2002) An efficient
-
Enright, A.J., Van Dongen, S. and Ouzounis C.A. (2002) An efficient
-
-
-
-
6
-
-
0036529479
-
-
algorithm for large-scale detection of protein families, Nucleic Res. 30, 1575-1584.
-
algorithm for large-scale detection of protein families, Nucleic Res. 30, 1575-1584.
-
-
-
-
7
-
-
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
-
8
-
-
2542558960
-
LEON. multiple aLignment Evaluation Of Neighbours
-
Thompson, J.D., Prigent, V. and Poch, O. (2004) LEON. multiple aLignment Evaluation Of Neighbours. Nucleic Acids Res., 32, 1298-1307.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1298-1307
-
-
Thompson, J.D.1
Prigent, V.2
Poch, O.3
-
9
-
-
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
-
10
-
-
0038391401
-
RASCAL. rapid scanning and correction of multiple sequence alignments
-
Thompson, J.D., Thierry, J.C. and Poch, O. (2003) RASCAL. rapid scanning and correction of multiple sequence alignments. Bioinformatics (Oxford, England), 19, 1155-1161.
-
(2003)
Bioinformatics (Oxford, England)
, vol.19
, pp. 1155-1161
-
-
Thompson, J.D.1
Thierry, J.C.2
Poch, O.3
-
11
-
-
38549084124
-
-
Felsenstein, 1993 PHYLIP (Phylogeny Inference Package) version 3.5c. Distributed by the author
-
Felsenstein. (1993) PHYLIP (Phylogeny Inference Package) version 3.5c. Distributed by the author.
-
-
-
-
12
-
-
0242578620
-
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
-
Guindon, S. and Gaseuel, O. (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst. Biol., 52, 696-704.
-
(2003)
Syst. Biol
, vol.52
, pp. 696-704
-
-
Guindon, S.1
Gaseuel, O.2
-
13
-
-
0034791426
-
A simple algorithm to infer gene duplication and speciation events on a gene tree
-
Zmasek, C.M. and Eddy, S.R. (2001) A simple algorithm to infer gene duplication and speciation events on a gene tree. Bioinformatics, 17, 821-828.
-
(2001)
Bioinformatics
, vol.17
, pp. 821-828
-
-
Zmasek, C.M.1
Eddy, S.R.2
-
14
-
-
0013017592
-
RIO. analyzing proteomes by automated phylogenomics using resampled inference of orthologs
-
Zmasek, C.M. and Eddy, S.R. (2002) RIO. analyzing proteomes by automated phylogenomics using resampled inference of orthologs. BMC Bioinformatics, 3, 14.
-
(2002)
BMC Bioinformatics
, vol.3
, pp. 14
-
-
Zmasek, C.M.1
Eddy, S.R.2
-
15
-
-
0003578968
-
-
2nd edn. Sobastopol CA, ISBN 1565922433
-
Christiansen, T., Torkington, N. and Wall, L. (1998) Perl Cookbook, 2nd edn. Sobastopol CA, ISBN 1565922433.
-
(1998)
Perl Cookbook
-
-
Christiansen, T.1
Torkington, N.2
Wall, L.3
-
16
-
-
0004254955
-
-
2nd edn. Sebastopol CA, ISBN 1565922433
-
Guelich, S., Gundavaram, S. and Birznieks, G. (2000) CGI Programming with Perl, 2nd edn. Sebastopol CA, ISBN 1565922433.
-
(2000)
CGI Programming with Perl
-
-
Guelich, S.1
Gundavaram, S.2
Birznieks, G.3
-
17
-
-
1342288004
-
The Jalview Java alignment editor
-
Clamp, M., Cuff, J., Searle, S.M. and Baxton, 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
Baxton, G.J.4
-
18
-
-
33646884846
-
DRTF. a database of rice transcription factors
-
Gao, G., Zhong, Y., Guo, A., Zhu, Q., Tang, W., Zheng, W., Gu, X., Wei, L and Luo, J. (2006) DRTF. a database of rice transcription factors. Bioinformatics, 22, 1286-1287.
-
(2006)
Bioinformatics
, vol.22
, pp. 1286-1287
-
-
Gao, G.1
Zhong, Y.2
Guo, A.3
Zhu, Q.4
Tang, W.5
Zheng, W.6
Gu, X.7
Wei, L.8
Luo, J.9
-
19
-
-
19544382556
-
DATF: A database of Arabidopsis transcription factors
-
Guo, A., He, K., Liu, D., Bai, S., Gu, X., Wei, L. and Luo, J. (2005) DATF: A database of Arabidopsis transcription factors. Bioinformatics 21, 2568-2569.
-
(2005)
Bioinformatics
, vol.21
, pp. 2568-2569
-
-
Guo, A.1
He, K.2
Liu, D.3
Bai, S.4
Gu, X.5
Wei, L.6
Luo, J.7
-
20
-
-
0037249498
-
The Arabidopsis Information Resource (TAIR). a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community
-
Rhee, S.Y., Beavis, W., Berardini, T.Z., Chen, G., Dixon, D., Doyle, A., Garcia-Hernandez, M., Huala, E., Lander, G. et al. (2003) The Arabidopsis Information Resource (TAIR). a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community. Nucleic Acids Res., 31, 224-228.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 224-228
-
-
Rhee, S.Y.1
Beavis, W.2
Berardini, T.Z.3
Chen, G.4
Dixon, D.5
Doyle, A.6
Garcia-Hernandez, M.7
Huala, E.8
Lander, G.9
-
21
-
-
13444282474
-
InterPro, progress and status in 2005
-
Mulder, N.J., Apweiler, R., Attwood, T.K., Bairoch, A., Bateman, A., Binns, D., Bradley, P., Bork, P., Bueher, P. et al. (2005) InterPro, progress and status in 2005. Nucleic Acids Res., 33 D201-D205.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Mulder, N.J.1
Apweiler, R.2
Attwood, T.K.3
Bairoch, A.4
Bateman, A.5
Binns, D.6
Bradley, P.7
Bork, P.8
Bueher, P.9
-
22
-
-
0345863935
-
The KEGG resource for deciphering the genome
-
Kanehisa, M., Goto, S., Kawashima, S., Okuno, Y. and Hattori, M. (2004) The KEGG resource for deciphering the genome. Nucleic Acids Res., 32, D277-D280.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Kanehisa, M.1
Goto, S.2
Kawashima, S.3
Okuno, Y.4
Hattori, M.5
-
23
-
-
13444256478
-
Inparanoid: A comprehensive database of eukaryotic orthologs
-
Database issue, D476-D480
-
O'Brien, K.P., Remm, M. and Sonnhammer, E.L. (2005) Inparanoid: A comprehensive database of eukaryotic orthologs. Nucleic Acids Res, 33 (Database issue), D476-D480.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
O'Brien, K.P.1
Remm, M.2
Sonnhammer, E.L.3
-
24
-
-
0035861990
-
Automatic clustering of orthologs and in-paralogs from pairwise species comparisons
-
Remm, M., Storm, C.E. and Sonnhammer, E.L. (2001) Automatic clustering of orthologs and in-paralogs from pairwise species comparisons. J. Mol. Biol., 314, 1041-1052.
-
(2001)
J. Mol. Biol
, vol.314
, pp. 1041-1052
-
-
Remm, M.1
Storm, C.E.2
Sonnhammer, E.L.3
-
25
-
-
0033956060
-
The COG database: A tool for genome-scale analysis of protein functions and evolution
-
Tatusov, R.L., Galperin, M.Y., Natale, D.A. and Koonin, E.V. (2000) The COG database: A tool for genome-scale analysis of protein functions and evolution. Nucleic Acids Res., 28, 33-36.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 33-36
-
-
Tatusov, R.L.1
Galperin, M.Y.2
Natale, D.A.3
Koonin, E.V.4
-
26
-
-
33846102840
-
POGs/PlantRBP: A resource for comparative genomics in plants
-
Walker, N.S., Stiffler, N. and Barkan, A. (2007) POGs/PlantRBP: A resource for comparative genomics in plants. Nucleic Acids Res., 35, D852-D856.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Walker, N.S.1
Stiffler, N.2
Barkan, A.3
-
27
-
-
0034992826
-
The closest BLAST hit is often not the nearest neighbor
-
Koski, L.B. and Golding, G.B, (2001) The closest BLAST hit is often not the nearest neighbor. J. Mol. Evol., 52, 540-542.
-
(2001)
J. Mol. Evol
, vol.52
, pp. 540-542
-
-
Koski, L.B.1
Golding, G.B.2
-
28
-
-
13444256478
-
Inparanoid. a comprehensive database of eukaryotic orthologs
-
O'Brien, K.P., Remm, M. and Sonnhammer, E.L. (2005) Inparanoid. a comprehensive database of eukaryotic orthologs. Nucleic Acids Res. 33, D476-D480.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
O'Brien, K.P.1
Remm, M.2
Sonnhammer, E.L.3
-
29
-
-
33645106540
-
OrthologID: Automation of genome-scale ortholog identification within a parsimony framework
-
Chiu, J.C., Lee, E.K., Egan, M.G., Sarkar, I.N., Coruzzi, G.M. and DeSalle, R. (2006) OrthologID: Automation of genome-scale ortholog identification within a parsimony framework. Bioinformatics, 22 699-707.
-
(2006)
Bioinformatics
, vol.22
, pp. 699-707
-
-
Chiu, J.C.1
Lee, E.K.2
Egan, M.G.3
Sarkar, I.N.4
Coruzzi, G.M.5
DeSalle, R.6
-
30
-
-
0042768158
-
Genome-wide insertional mutagenesis of Arabidopsis thaliana
-
Alonso, J.M., Stepanova, A.N., Leisse, T.J., Kim, C.J., Chen, H., Shinn, P., Stevenson, D.K., Zimmerman, J., Barajas, P. et al. (2003) Genome-wide insertional mutagenesis of Arabidopsis thaliana. Science 301, 653-657.
-
(2003)
Science
, vol.301
, pp. 653-657
-
-
Alonso, J.M.1
Stepanova, A.N.2
Leisse, T.J.3
Kim, C.J.4
Chen, H.5
Shinn, P.6
Stevenson, D.K.7
Zimmerman, J.8
Barajas, P.9
-
31
-
-
33644877416
-
-
Droc, G., Ruiz, M., Larmande, P., Peteira, A., Piffanelli, P., Morel, J.B., Dievart, A., Courtois, B., Guiderdoni, E. et al. (2006) OryGenesDB: A database, for rice reverse genetics. Nucleic Acids Res. 34, D736-D740.
-
Droc, G., Ruiz, M., Larmande, P., Peteira, A., Piffanelli, P., Morel, J.B., Dievart, A., Courtois, B., Guiderdoni, E. et al. (2006) OryGenesDB: A database, for rice reverse genetics. Nucleic Acids Res. 34, D736-D740.
-
-
-
|