-
1
-
-
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
-
-
-
2
-
-
0036080338
-
Detecting cryptically simple protein sequences using the SIMPLE algorithm
-
Alba MM, Laskowski RA, Hancock JM (2002) Detecting cryptically simple protein sequences using the SIMPLE algorithm. Bioinformatics 18:672-678
-
(2002)
Bioinformatics
, vol.18
, pp. 672-678
-
-
Alba, M.M.1
Laskowski, R.A.2
Hancock, J.M.3
-
3
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (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
-
4
-
-
0035112410
-
Involvement of a nuclear-encoded basic helix-loop-helix protein in transcription of the light-responsive promoter of psbD
-
Baba K, Nakano T, Yamagishi K, Yoshida S (2001) Involvement of a nuclear-encoded basic helix-loop-helix protein in transcription of the light-responsive promoter of psbD. Plant Physiol 125:595-603
-
(2001)
Plant Physiol
, vol.125
, pp. 595-603
-
-
Baba, K.1
Nakano, T.2
Yamagishi, K.3
Yoshida, S.4
-
5
-
-
0028685490
-
Fitting a mixture model by expectation maximization to discover motifs in biopolymers
-
Bailey TL, Elkan C (1994) Fitting a mixture model by expectation maximization to discover motifs in biopolymers. Proc Int Conf Intell Syst Mol Biol 2:28-36
-
(1994)
Proc Int Conf Intell Syst Mol Biol
, vol.2
, pp. 28-36
-
-
Bailey, T.L.1
Elkan, C.2
-
6
-
-
3142732892
-
Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution
-
Blanc G, Wolfe KH (2004a) Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution. Plant Cell 16:1679-1691
-
(2004)
Plant Cell
, vol.16
, pp. 1679-1691
-
-
Blanc, G.1
Wolfe, K.H.2
-
7
-
-
3142700743
-
Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes
-
Blanc G, Wolfe KH (2004b) Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes. Plant Cell 16:1667-1678
-
(2004)
Plant Cell
, vol.16
, pp. 1667-1678
-
-
Blanc, G.1
Wolfe, K.H.2
-
8
-
-
0033891353
-
Extensive duplication and reshuffling in the Arabidopsis genome
-
Blanc G, Barakat A, Guyot R, Cooke R, Delseny M (2000) Extensive duplication and reshuffling in the Arabidopsis genome. Plant Cell 12:1093-1101
-
(2000)
Plant Cell
, vol.12
, pp. 1093-1101
-
-
Blanc, G.1
Barakat, A.2
Guyot, R.3
Cooke, R.4
Delseny, M.5
-
9
-
-
0037313579
-
A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome
-
Blanc G, Hokamp K, Wolfe KH (2003) A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome. Genome Res 13:137-144
-
(2003)
Genome Res
, vol.13
, pp. 137-144
-
-
Blanc, G.1
Hokamp, K.2
Wolfe, K.H.3
-
10
-
-
0037468758
-
Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events
-
Bowers JE, Chapman BA, Rong J, Paterson AH (2003) Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events. Nature 422:433-438
-
(2003)
Nature
, vol.422
, pp. 433-438
-
-
Bowers, J.E.1
Chapman, B.A.2
Rong, J.3
Paterson, A.H.4
-
11
-
-
0035201828
-
Phylogenetic inferences from molecular sequences: Review and critique
-
Brocchieri L (2001) Phylogenetic inferences from molecular sequences: review and critique. Theor Popul Biol 59:27-40
-
(2001)
Theor Popul Biol
, vol.59
, pp. 27-40
-
-
Brocchieri, L.1
-
12
-
-
0242668843
-
A phylogenomic investigation of CYCLOIDEA-like TCP genes in the Leguminosae
-
Citerne HL, Luo D, Pennington RT, Coen E, Cronk QC (2003) A phylogenomic investigation of CYCLOIDEA-like TCP genes in the Leguminosae. Plant Physiol 131:1042-1053
-
(2003)
Plant Physiol
, vol.131
, pp. 1042-1053
-
-
Citerne, H.L.1
Luo, D.2
Pennington, R.T.3
Coen, E.4
Cronk, Q.C.5
-
14
-
-
0002206110
-
Role of TCP genes in the evolution of morphological characters in TCP genes
-
Cronk QCB, Bateman RM, Hawkins (eds) Taylor and Francis, London
-
Cubas P (2002) Role of TCP genes in the evolution of morphological characters in TCP genes. In: Cronk QCB, Bateman RM, Hawkins (eds) Developmental genetics and plant evolution. Taylor and Francis, London, pp 247-266
-
(2002)
Developmental Genetics and Plant Evolution
, pp. 247-266
-
-
Cubas, P.1
-
15
-
-
8844234948
-
Floral zygomorphy, the recurring evolution of a successful trait
-
Cubas P (2004) Floral zygomorphy, the recurring evolution of a successful trait. Bioessays 26:1175-1184
-
(2004)
Bioessays
, vol.26
, pp. 1175-1184
-
-
Cubas, P.1
-
16
-
-
0033119581
-
The TCP domain: A motif found in proteins regulating plant growth and development
-
Cubas P, Lauter N, Doebley J, Coen E (1999) The TCP domain: a motif found in proteins regulating plant growth and development. Plant J 18:215-222
-
(1999)
Plant J
, vol.18
, pp. 215-222
-
-
Cubas, P.1
Lauter, N.2
Doebley, J.3
Coen, E.4
-
17
-
-
0033026431
-
Rapid DNA extraction from ferns for PCR-based analyses
-
Dempster EL, Pryor KV, Francis D, Young JE, Rogers HJ (1999) Rapid DNA extraction from ferns for PCR-based analyses. Biotechniques 27:66-68
-
(1999)
Biotechniques
, vol.27
, pp. 66-68
-
-
Dempster, E.L.1
Pryor, K.V.2
Francis, D.3
Young, J.E.4
Rogers, H.J.5
-
18
-
-
0025949412
-
Nuclear targeting sequences-a consensus?
-
Dingwall C, Laskey RA (1991) Nuclear targeting sequences-a consensus? Trends Biochem Sci 16:478-481
-
(1991)
Trends Biochem Sci
, vol.16
, pp. 478-481
-
-
Dingwall, C.1
Laskey, R.A.2
-
19
-
-
0029166837
-
Teosinte branched1 and the origin of maize: Evidence for epistasis and the evolution of dominance
-
Doebley J, Stec A, Gustus C (1995) teosinte branched1 and the origin of maize: evidence for epistasis and the evolution of dominance. Genetics 141:333-346
-
(1995)
Genetics
, vol.141
, pp. 333-346
-
-
Doebley, J.1
Stec, A.2
Gustus, C.3
-
20
-
-
0034894278
-
PAL: An object-oriented programming library for molecular evolution and phylogenetics
-
Drummond A, Strimmer K (2001) PAL: an object-oriented programming library for molecular evolution and phylogenetics. Bioinformatics 17:662-663
-
(2001)
Bioinformatics
, vol.17
, pp. 662-663
-
-
Drummond, A.1
Strimmer, K.2
-
21
-
-
0034697980
-
Predicting subcellular localization of proteins based on their N-terminal amino acid sequence
-
Emanuelsson O, Nielsen H, Brunak S, von Heijne G (2000) Predicting subcellular localization of proteins based on their N-terminal amino acid sequence. J Mol Biol 300:1005-1016
-
(2000)
J Mol Biol
, vol.300
, pp. 1005-1016
-
-
Emanuelsson, O.1
Nielsen, H.2
Brunak, S.3
Von Heijne, G.4
-
22
-
-
0030464460
-
SEAVIEW and PHYLOWIN: Two graphic tools for sequence alignment and molecular phylogeny
-
Galtier N, Gouy M, Gautier C (1996) SEAVIEW and PHYLOWIN: two graphic tools for sequence alignment and molecular phylogeny. Comput Appl Biosci 12:543-548
-
(1996)
Comput Appl Biosci
, vol.12
, pp. 543-548
-
-
Galtier, N.1
Gouy, M.2
Gautier, C.3
-
23
-
-
0030807655
-
BIONJ: An improved version of the NJ algorithm based on a simple model of sequence data
-
Gascuel O (1997) BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data. Mol Biol Evol 14:685-695
-
(1997)
Mol Biol Evol
, vol.14
, pp. 685-695
-
-
Gascuel, O.1
-
24
-
-
0037023349
-
A draft sequence of the rice genome (Oryza sativa L. ssp. japonica)
-
Goff SA, Ricke D, Lan TH, Presting G, Wang R, Dunn M, Glazebrook J, Sessions A, Oeller P, Varma H, Hadley D, Hutchison D, Martin C, Katagiri F, Lange BM, Moughamer T, Xia Y, Budworth P, Zhong J, Miguel T, Paszkowski U, Zhang S, Colbert M, Sun WL, Chen L, Cooper B, Park S, Wood TC, Mao L, Quail P, Wing R, Dean R, Yu Y, Zharkikh A, Shen R, Sahasrabudhe S, Thomas A, Cannings R, Gutin A, Pruss D, Reid J, Tavtigian S, Mitchell J, Eldredge G, Scholl T, Miller RM, Bhatnagar S, Adey N, Rubano T, Tusneem N, Robinson R, Feldhaus J, Macalma T, Oliphant A, Briggs S (2002) A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science 296:92-100
-
(2002)
Science
, vol.296
, pp. 92-100
-
-
Goff, S.A.1
Ricke, D.2
Lan, T.H.3
Presting, G.4
Wang, R.5
Dunn, M.6
Glazebrook, J.7
Sessions, A.8
Oeller, P.9
Varma, H.10
Hadley, D.11
Hutchison, D.12
Martin, C.13
Katagiri, F.14
Lange, B.M.15
Moughamer, T.16
Xia, Y.17
Budworth, P.18
Zhong, J.19
Miguel, T.20
Paszkowski, U.21
Zhang, S.22
Colbert, M.23
Sun, W.L.24
Chen, L.25
Cooper, B.26
Park, S.27
Wood, T.C.28
Mao, L.29
Quail, P.30
Wing, R.31
Dean, R.32
Yu, Y.33
Zharkikh, A.34
Shen, R.35
Sahasrabudhe, S.36
Thomas, A.37
Cannings, R.38
Gutin, A.39
Pruss, D.40
Reid, J.41
Tavtigian, S.42
Mitchell, J.43
Eldredge, G.44
Scholl, T.45
Miller, R.M.46
Bhatnagar, S.47
Adey, N.48
Rubano, T.49
Tusneem, N.50
Robinson, R.51
Feldhaus, J.52
MacAlma, T.53
Oliphant, A.54
Briggs, S.55
more..
-
25
-
-
0242578620
-
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
-
Guindon S, Gascuel 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
Gascuel, O.2
-
26
-
-
34547718561
-
Small-scale duplications play a significant role in rice genome evolution
-
Guo X-Y, Xu G-H, Zhang Y, Hu W-M, Fan L-J (2005) Small-scale duplications play a significant role in rice genome evolution. Rice Sci 12:173-178
-
(2005)
Rice Sci
, vol.12
, pp. 173-178
-
-
Guo, X.-Y.1
Xu, G.-H.2
Zhang, Y.3
Hu, W.-M.4
Fan, L.-J.5
-
27
-
-
4143051590
-
Ancestral genome duplication in rice
-
Guyot R, Keller B (2004) Ancestral genome duplication in rice. Genome 47:610-614
-
(2004)
Genome
, vol.47
, pp. 610-614
-
-
Guyot, R.1
Keller, B.2
-
28
-
-
2942568227
-
A molecular timescale of eukaryote evolution and the rise of complex multicellular life
-
Hedges SB, Blair JE, Venturi ML, Shoe JL (2004) A molecular timescale of eukaryote evolution and the rise of complex multicellular life. BMC Evol Biol 4:2
-
(2004)
BMC Evol Biol
, vol.4
, pp. 2
-
-
Hedges, S.B.1
Blair, J.E.2
Venturi, M.L.3
Shoe, J.L.4
-
29
-
-
0037387371
-
Why do paralogs persist? Molecular evolution of CYCLOIDEA and related floral symmetry genes in Antirrhineae (Veronicaceae)
-
Hileman LC, Baum DA (2003) Why do paralogs persist? Molecular evolution of CYCLOIDEA and related floral symmetry genes in Antirrhineae (Veronicaceae). Mol Biol Evol 20:591-600
-
(2003)
Mol Biol Evol
, vol.20
, pp. 591-600
-
-
Hileman, L.C.1
Baum, D.A.2
-
30
-
-
0032849859
-
CAP3: A DNA sequence assembly program
-
Huang X, Madan A (1999) CAP3: A DNA sequence assembly program. Genome Res 9:868-877
-
(1999)
Genome Res
, vol.9
, pp. 868-877
-
-
Huang, X.1
Madan, A.2
-
31
-
-
0026691182
-
The rapid generation of mutation data matrices from protein sequences
-
Jones DT, Taylor WR, Thornton JM (1992) The rapid generation of mutation data matrices from protein sequences. Comput Appl Biosci 8:275-282
-
(1992)
Comput Appl Biosci
, vol.8
, pp. 275-282
-
-
Jones, D.T.1
Taylor, W.R.2
Thornton, J.M.3
-
34
-
-
0037624063
-
Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice
-
Kikuchi S, Satoh K, Nagata T, Kawagashira N, Doi K, Kishimoto N, Yazaki J, Ishikawa M, Yamada H, Ooka H, Hotta I, Kojima K, Namiki T, Ohneda E, Yahagi W, Suzuki K, Li CJ, Ohtsuki K, Shishiki T, Otomo Y, Murakami K, Iida Y, Sugano S, Fujimura T, Suzuki Y, Tsunoda Y, Kurosaki T, Kodama T, Masuda H, Kobayashi M, Xie Q, Lu M, Narikawa R, Sugiyama A, Mizuno K, Yokomizo S, Niikura J, Ikeda R, Ishibiki J, Kawamata M, Yoshimura A, Miura J, Kusumegi T, Oka M, Ryu R, Ueda M, Matsubara K, Kawai J, Carninci P, Adachi J, Aizawa K, Arakawa T, Fukuda S, Hara A, Hashizume W, Hayatsu N, Imotani K, Ishii Y, Itoh M, Kagawa I, Kondo S, Konno H, Miyazaki A, Osato N, Ota Y, Saito R, Sasaki D, Sato K, Shibata K, Shinagawa A, Shiraki T, Yoshino M, Hayashizaki Y, Yasunishi A (2003) Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science 301:376-379
-
(2003)
Science
, vol.301
, pp. 376-379
-
-
Kikuchi, S.1
Satoh, K.2
Nagata, T.3
Kawagashira, N.4
Doi, K.5
Kishimoto, N.6
Yazaki, J.7
Ishikawa, M.8
Yamada, H.9
Ooka, H.10
Hotta, I.11
Kojima, K.12
Namiki, T.13
Ohneda, E.14
Yahagi, W.15
Suzuki, K.16
Li, C.J.17
Ohtsuki, K.18
Shishiki, T.19
Otomo, Y.20
Murakami, K.21
Iida, Y.22
Sugano, S.23
Fujimura, T.24
Suzuki, Y.25
Tsunoda, Y.26
Kurosaki, T.27
Kodama, T.28
Masuda, H.29
Kobayashi, M.30
Xie, Q.31
Lu, M.32
Narikawa, R.33
Sugiyama, A.34
Mizuno, K.35
Yokomizo, S.36
Niikura, J.37
Ikeda, R.38
Ishibiki, J.39
Kawamata, M.40
Yoshimura, A.41
Miura, J.42
Kusumegi, T.43
Oka, M.44
Ryu, R.45
Ueda, M.46
Matsubara, K.47
Kawai, J.48
Carninci, P.49
Adachi, J.50
Aizawa, K.51
Arakawa, T.52
Fukuda, S.53
Hara, A.54
Hashizume, W.55
Hayatsu, N.56
Imotani, K.57
Ishii, Y.58
Itoh, M.59
Kagawa, I.60
Kondo, S.61
Konno, H.62
Miyazaki, A.63
Osato, N.64
Ota, Y.65
Saito, R.66
Sasaki, D.67
Sato, K.68
Shibata, K.69
Shinagawa, A.70
Shiraki, T.71
Yoshino, M.72
Hayashizaki, Y.73
Yasunishi, A.74
more..
-
35
-
-
0031225050
-
PCF1 and PCF2 specifically bind to cis elements in the rice proliferating cell nuclear antigen gene
-
Kosugi S, Ohashi Y (1997) PCF1 and PCF2 specifically bind to cis elements in the rice proliferating cell nuclear antigen gene. Plant Cell 9:1607-1619
-
(1997)
Plant Cell
, vol.9
, pp. 1607-1619
-
-
Kosugi, S.1
Ohashi, Y.2
-
36
-
-
0036106417
-
DNA binding and dimerization specificity and potential targets for the TCP protein family
-
Kosugi S, Ohashi Y (2002) DNA binding and dimerization specificity and potential targets for the TCP protein family. Plant J 30:337-348
-
(2002)
Plant J
, vol.30
, pp. 337-348
-
-
Kosugi, S.1
Ohashi, Y.2
-
37
-
-
3242810318
-
MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment
-
Kumar S, Tamura K, Nei M (2004) MEGA3: integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment. Brief Bioinform 5:150-163
-
(2004)
Brief Bioinform
, vol.5
, pp. 150-163
-
-
Kumar, S.1
Tamura, K.2
Nei, M.3
-
38
-
-
17644368841
-
Green algae and the origin of land plants
-
Lewis LA, McCourt RM (2004) Green algae and the origin of land plants. Am J Bot 91:1535-1556
-
(2004)
Am J Bot
, vol.91
, pp. 1535-1556
-
-
Lewis, L.A.1
McCourt, R.M.2
-
39
-
-
0032519353
-
GeneMark.hmm: New solutions for gene finding
-
Lukashin AV, Borodovsky M (1998) GeneMark.hmm: new solutions for gene finding. Nucleic Acids Res 26:1107-1115
-
(1998)
Nucleic Acids Res
, vol.26
, pp. 1107-1115
-
-
Lukashin, A.V.1
Borodovsky, M.2
-
40
-
-
0035064812
-
Molecular evolution of the teosinte branched gene among maize and related grasses
-
Lukens L, Doebley J (2001) Molecular evolution of the teosinte branched gene among maize and related grasses. Mol Biol Evol 18:627-638
-
(2001)
Mol Biol Evol
, vol.18
, pp. 627-638
-
-
Lukens, L.1
Doebley, J.2
-
41
-
-
17244368487
-
Modeling gene and genome duplications in eukaryotes
-
Maere S, De Bodt S, Raes J, Casneuf T, Van Montagu M, Kuiper M, Van de Peer Y (2005) Modeling gene and genome duplications in eukaryotes. Proc Natl Acad Sci USA 102:5454-5459
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 5454-5459
-
-
Maere, S.1
De Bodt, S.2
Raes, J.3
Casneuf, T.4
Van Montagu, M.5
Kuiper, M.6
Van De Peer, Y.7
-
42
-
-
4544372760
-
From endonucleases to transcription factors: Evolution of the AP2 DNA binding domain in plants
-
Magnani E, Sjölander K, Hake S (2004) From endonucleases to transcription factors: evolution of the AP2 DNA binding domain in plants. Plant Cell 16:2265-2277
-
(2004)
Plant Cell
, vol.16
, pp. 2265-2277
-
-
Magnani, E.1
Sjölander, K.2
Hake, S.3
-
44
-
-
0037022528
-
The organization of Physcomitrella patens RAD51 genes is unique among eukaryotic organisms
-
Markmann-Mulisch U, Hadi MZ, Koepchen K, Alonso JC, Russo VE, Schell J, Reiss B (2002) The organization of Physcomitrella patens RAD51 genes is unique among eukaryotic organisms. Proc Natl Acad Sci USA 99:2959-2964
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 2959-2964
-
-
Markmann-Mulisch, U.1
Hadi, M.Z.2
Koepchen, K.3
Alonso, J.C.4
Russo, V.E.5
Schell, J.6
Reiss, B.7
-
45
-
-
0038745725
-
Conservation and diversity of gene families explored using the CODEHOP strategy in higher plants
-
Morant M, Hehn A, Werck-Reichhart D (2002) Conservation and diversity of gene families explored using the CODEHOP strategy in higher plants. BMC Plant Biol 2:7
-
(2002)
BMC Plant Biol
, vol.2
, pp. 7
-
-
Morant, M.1
Hehn, A.2
Werck-Reichhart, D.3
-
46
-
-
0033955649
-
Examining rates and patterns of nucleotide substitution in plants
-
Muse SV (2000) Examining rates and patterns of nucleotide substitution in plants. Plant Mol Biol 42:25-43
-
(2000)
Plant Mol Biol
, vol.42
, pp. 25-43
-
-
Muse, S.V.1
-
47
-
-
1242319335
-
Type I MADS-box genes have experienced faster birth-and-death evolution than type II MADS-box genes in angiosperms
-
Nam J, Kim J, Lee S, An G, Ma H, Nei M (2004) Type I MADS-box genes have experienced faster birth-and-death evolution than type II MADS-box genes in angiosperms. Proc Natl Acad Sci USA 101:1910-1915
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 1910-1915
-
-
Nam, J.1
Kim, J.2
Lee, S.3
An, G.4
Ma, H.5
Nei, M.6
-
49
-
-
0022507362
-
Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions
-
Nei M, Gojobori T (1986) Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol 3:418-426
-
(1986)
Mol Biol Evol
, vol.3
, pp. 418-426
-
-
Nei, M.1
Gojobori, T.2
-
50
-
-
1442329649
-
Antisense transcripts with rice full-length cDNAs
-
Osato N, Yamada H, Satoh K, Ooka H, Yamamoto M, Suzuki K, Kawai J, Carninci P, Ohtomo Y, Murakami K, Matsubara K, Kikuchi S, Hayashizaki Y (2003) Antisense transcripts with rice full-length cDNAs. Genome Biol 5:R5
-
(2003)
Genome Biol
, vol.5
, pp. 5
-
-
Osato, N.1
Yamada, H.2
Satoh, K.3
Ooka, H.4
Yamamoto, M.5
Suzuki, K.6
Kawai, J.7
Carninci, P.8
Ohtomo, Y.9
Murakami, K.10
Matsubara, K.11
Kikuchi, S.12
Hayashizaki, Y.13
-
51
-
-
3242882168
-
MyHits: A new interactive resource for protein annotation and domain identification
-
Pagni M, Ioannidis V, Cerutti L, Zahn-Zabal M, Jongeneel CV, Falquet L (2004) MyHits: a new interactive resource for protein annotation and domain identification. Nucleic Acids Res 32:W332-W335
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Pagni, M.1
Ioannidis, V.2
Cerutti, L.3
Zahn-Zabal, M.4
Jongeneel, C.V.5
Falquet, L.6
-
52
-
-
0141493493
-
Control of leaf morphogenesis by microRNAs
-
Palatnik JF, Allen E, Wu X, Schommer C, Schwab R, Carrington JC, Weigel D (2003) Control of leaf morphogenesis by microRNAs. Nature 425:257-263
-
(2003)
Nature
, vol.425
, pp. 257-263
-
-
Palatnik, J.F.1
Allen, E.2
Wu, X.3
Schommer, C.4
Schwab, R.5
Carrington, J.C.6
Weigel, D.7
-
53
-
-
0033784032
-
Comparative genomics of plant chromosomes
-
Paterson AH, Bowers JE, Burow MD, Draye X, Elsik CG, Jiang CX, Katsar CS, Lan TH, Lin YR, Ming R, Wright RJ (2000) Comparative genomics of plant chromosomes. Plant Cell 12:1523-1540
-
(2000)
Plant Cell
, vol.12
, pp. 1523-1540
-
-
Paterson, A.H.1
Bowers, J.E.2
Burow, M.D.3
Draye, X.4
Elsik, C.G.5
Jiang, C.X.6
Katsar, C.S.7
Lan, T.H.8
Lin, Y.R.9
Ming, R.10
Wright, R.J.11
-
54
-
-
3042836334
-
Ancient polyploidization predating divergence of the cereals, and its consequences for comparative genomics
-
Paterson AH, Bowers JE, Chapman BA (2004) Ancient polyploidization predating divergence of the cereals, and its consequences for comparative genomics. Proc Natl Acad Sci USA 101:9903-9908
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 9903-9908
-
-
Paterson, A.H.1
Bowers, J.E.2
Chapman, B.A.3
-
55
-
-
0037930615
-
Drafting a tree
-
Pennisi E (2003) Drafting a tree. Science 300:1694
-
(2003)
Science
, vol.300
, pp. 1694
-
-
Pennisi, E.1
-
56
-
-
0037266832
-
Investigating ancient duplication events in the Arabidopsis genome
-
Raes J, Vandepoele K, Simillion C, Saeys Y, Van de Peer Y (2003) Investigating ancient duplication events in the Arabidopsis genome. J Struct Funct Genomics 3:117-129
-
(2003)
J Struct Funct Genomics
, vol.3
, pp. 117-129
-
-
Raes, J.1
Vandepoele, K.2
Simillion, C.3
Saeys, Y.4
Van De Peer, Y.5
-
57
-
-
0346095400
-
Evolution of the TCP gene family in Asteridae: Cladistic and network approaches to understanding regulatory gene family diversification and its impact on morphological evolution
-
Reeves PA, Olmstead RG (2003) Evolution of the TCP gene family in Asteridae: cladistic and network approaches to understanding regulatory gene family diversification and its impact on morphological evolution. Mol Biol Evol 20:1997-2009
-
(2003)
Mol Biol Evol
, vol.20
, pp. 1997-2009
-
-
Reeves, P.A.1
Olmstead, R.G.2
-
58
-
-
3543024524
-
Contrasting modes of diversification in the Aux/IAA and ARF gene families
-
Remington DL, Vision TJ, Guilfoyle TJ, Reed JW (2004) Contrasting modes of diversification in the Aux/IAA and ARF gene families. Plant Physiol 135:1738-1752
-
(2004)
Plant Physiol
, vol.135
, pp. 1738-1752
-
-
Remington, D.L.1
Vision, T.J.2
Guilfoyle, T.J.3
Reed, J.W.4
-
59
-
-
0034671865
-
Arabidopsis transcription factors: Genome-wide comparative analysis among eukaryotes
-
Riechmann JL, Heard J, Martin G, Reuber L, Jiang C, Keddie J, Adam L, Pineda O, Ratcliffe OJ, Samaha RR, Creelman R, Pilgrim M, Broun P, Zhang JZ, Ghandehari D, Sherman BK, Yu G (2000) Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science 290:2105-2110
-
(2000)
Science
, vol.290
, pp. 2105-2110
-
-
Riechmann, J.L.1
Heard, J.2
Martin, G.3
Reuber, L.4
Jiang, C.5
Keddie, J.6
Adam, L.7
Pineda, O.8
Ratcliffe, O.J.9
Samaha, R.R.10
Creelman, R.11
Pilgrim, M.12
Broun, P.13
Zhang, J.Z.14
Ghandehari, D.15
Sherman, B.K.16
Yu, G.17
-
60
-
-
0032052770
-
Consensus-degenerate hybrid oligonucleotide primers for amplification of distantly related sequences
-
Rose TM, Schultz ER, Henikoff JG, Pietrokovski S, McCallum CM, Henikoff S (1998) Consensus-degenerate hybrid oligonucleotide primers for amplification of distantly related sequences. Nucleic Acids Res 26:1628-1635
-
(1998)
Nucleic Acids Res
, vol.26
, pp. 1628-1635
-
-
Rose, T.M.1
Schultz, E.R.2
Henikoff, J.G.3
Pietrokovski, S.4
McCallum, C.M.5
Henikoff, S.6
-
61
-
-
0034065724
-
Ab initio gene finding in Drosophila genomic DNA
-
Salamov AA, Solovyev VV (2000) Ab initio gene finding in Drosophila genomic DNA. Genome Res 10:516-522
-
(2000)
Genome Res
, vol.10
, pp. 516-522
-
-
Salamov, A.A.1
Solovyev, V.V.2
-
63
-
-
33644794386
-
Transcription factor families have much higher expansion rates in plants than in animals
-
Shiu SH, Shih MC, Li WH (2005) Transcription factor families have much higher expansion rates in plants than in animals. Plant Physiol 139:18-26
-
(2005)
Plant Physiol
, vol.139
, pp. 18-26
-
-
Shiu, S.H.1
Shih, M.C.2
Li, W.H.3
-
64
-
-
0141498465
-
Abundance and distributions of eukaryote protein simple sequences
-
Sim KL, Creamer TP (2002) Abundance and distributions of eukaryote protein simple sequences. Mol Cell Proteomics 1:983-995
-
(2002)
Mol Cell Proteomics
, vol.1
, pp. 983-995
-
-
Sim, K.L.1
Creamer, T.P.2
-
65
-
-
0037109058
-
The hidden duplication past of Arabidopsis thaliana
-
Simillion C, Vandepoele K, Van Montagu MC, Zabeau M, Van de Peer Y (2002) The hidden duplication past of Arabidopsis thaliana. Proc Natl Acad Sci USA 99:13627-13632
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 13627-13632
-
-
Simillion, C.1
Vandepoele, K.2
Van Montagu, M.C.3
Zabeau, M.4
Van De Peer, Y.5
-
66
-
-
2942527473
-
Gene prediction with a hidden Markov model and a new intron submodel
-
Suppl 2
-
Stanke M, Waack S (2003) Gene prediction with a hidden Markov model and a new intron submodel. Bioinformatics 19 (Suppl 2):II215-II225
-
(2003)
Bioinformatics
, vol.19
-
-
Stanke, M.1
Waack, S.2
-
67
-
-
21244483590
-
EST data suggest that poplar is an ancient polyploid
-
Sterck L, Rombauts S, Jansson S, Sterky F, Rouze P, Van de Peer Y (2005) EST data suggest that poplar is an ancient polyploid. New Phytol 167:165-170
-
(2005)
New Phytol
, vol.167
, pp. 165-170
-
-
Sterck, L.1
Rombauts, S.2
Jansson, S.3
Sterky, F.4
Rouze, P.5
Van De Peer, Y.6
-
68
-
-
0035123008
-
Two types of putative nuclear factors that physically interact with histidine-containing phosphotransfer (Hpt) domains, signaling mediators in His-to-Asp phosphorelay, in Arabidopsis thaliana
-
Suzuki T, Sakurai K, Ueguchi C, Mizuno T (2001) Two types of putative nuclear factors that physically interact with histidine-containing phosphotransfer (Hpt) domains, signaling mediators in His-to-Asp phosphorelay, in Arabidopsis thaliana. Plant Cell Physiol 42:37-45
-
(2001)
Plant Cell Physiol
, vol.42
, pp. 37-45
-
-
Suzuki, T.1
Sakurai, K.2
Ueguchi, C.3
Mizuno, T.4
-
69
-
-
0031574072
-
The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
-
Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876-4882
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 4876-4882
-
-
Thompson, J.D.1
Gibson, T.J.2
Plewniak, F.3
Jeanmougin, F.4
Higgins, D.G.5
-
70
-
-
4444343960
-
Genome-wide analysis of the GRAS gene family in rice and Arabidopsis
-
Tian C, Wan P, Sun S, Li J, Chen M (2004) Genome-wide analysis of the GRAS gene family in rice and Arabidopsis. Plant Mol Biol 54:519-532
-
(2004)
Plant Mol Biol
, vol.54
, pp. 519-532
-
-
Tian, C.1
Wan, P.2
Sun, S.3
Li, J.4
Chen, M.5
-
71
-
-
18844408081
-
Evidence for an ancient whole-genome duplication event in rice and other cereals
-
Tian CG, Xiong YQ, Liu TY, Sun SH, Chen LB, Chen MS (2005) Evidence for an ancient whole-genome duplication event in rice and other cereals. Yi Chuan Xue Bao 32:519-527
-
(2005)
Yi Chuan Xue Bao
, vol.32
, pp. 519-527
-
-
Tian, C.G.1
Xiong, Y.Q.2
Liu, T.Y.3
Sun, S.H.4
Chen, L.B.5
Chen, M.S.6
-
72
-
-
0036889658
-
Detecting the undetectable: Uncovering duplicated segments in Arabidopsis by comparison with rice
-
Vandepoele K, Simillion C, Van de Peer Y (2002) Detecting the undetectable: uncovering duplicated segments in Arabidopsis by comparison with rice. Trends Genet 18:606-608
-
(2002)
Trends Genet
, vol.18
, pp. 606-608
-
-
Vandepoele, K.1
Simillion, C.2
Van De Peer, Y.3
-
73
-
-
0141564555
-
Evidence that rice and other cereals are ancient aneuploids
-
Vandepoele K, Simillion C, Van de Peer Y (2003) Evidence that rice and other cereals are ancient aneuploids. Plant Cell 15:2192-2202
-
(2003)
Plant Cell
, vol.15
, pp. 2192-2202
-
-
Vandepoele, K.1
Simillion, C.2
Van De Peer, Y.3
-
74
-
-
14244250895
-
Duplication and DNA segmental loss in the rice genome: Implications for diploidization
-
Wang X, Shi X, Hao B, Ge S, Luo J (2005) Duplication and DNA segmental loss in the rice genome: implications for diploidization. New Phytol 165:937-946
-
(2005)
New Phytol
, vol.165
, pp. 937-946
-
-
Wang, X.1
Shi, X.2
Hao, B.3
Ge, S.4
Luo, J.5
-
75
-
-
1342306009
-
CUPULIFORMIS establishes lateral organ boundaries in Antirrhinum
-
Weir I, Lu J, Cook H, Causier B, Schwarz-Sommer Z, Davies B (2004) CUPULIFORMIS establishes lateral organ boundaries in Antirrhinum. Development 131:915-922
-
(2004)
Development
, vol.131
, pp. 915-922
-
-
Weir, I.1
Lu, J.2
Cook, H.3
Causier, B.4
Schwarz-Sommer, Z.5
Davies, B.6
-
76
-
-
0043123111
-
RevTrans: Multiple alignment of coding DNA from aligned amino acid sequences
-
Wernersson R, Pedersen AG (2003) RevTrans: Multiple alignment of coding DNA from aligned amino acid sequences. Nucleic Acids Res 31:3537-3539
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3537-3539
-
-
Wernersson, R.1
Pedersen, A.G.2
-
77
-
-
0042697343
-
The evolution of transcriptional regulation in eukaryotes
-
Wray GA, Hahn MW, Abouheif E, Balhoff JP, Pizer M, Rockman MV, Romano LA (2003) The evolution of transcriptional regulation in eukaryotes. Mol Biol Evol 20:1377-1419
-
(2003)
Mol Biol Evol
, vol.20
, pp. 1377-1419
-
-
Wray, G.A.1
Hahn, M.W.2
Abouheif, E.3
Balhoff, J.P.4
Pizer, M.5
Rockman, M.V.6
Romano, L.A.7
-
78
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
Yang Z (1997) PAML: a program package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci 13:555-556
-
(1997)
Comput Appl Biosci
, vol.13
, pp. 555-556
-
-
Yang, Z.1
-
79
-
-
0346494833
-
The Rice PIPELINE: A unification tool for plant functional genomics
-
database issue
-
Yazaki J, Kojima K, Suzuki K, Kishimoto N, Kikuchi S (2004) The Rice PIPELINE: a unification tool for plant functional genomics. Nucleic Acids Res 32(database issue):D383-D387
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Yazaki, J.1
Kojima, K.2
Suzuki, K.3
Kishimoto, N.4
Kikuchi, S.5
-
80
-
-
1942469414
-
A molecular timeline for the origin of photosynthetic eukaryotes
-
Yoon HS, Hackett JD, Ciniglia C, Pinto G, Bhattacharya D (2004) A molecular timeline for the origin of photosynthetic eukaryotes. Mol Biol Evol 21:809-818
-
(2004)
Mol Biol Evol
, vol.21
, pp. 809-818
-
-
Yoon, H.S.1
Hackett, J.D.2
Ciniglia, C.3
Pinto, G.4
Bhattacharya, D.5
-
81
-
-
20144366003
-
The genomes of Oryza sativa: A history of duplications
-
Yu J, Wang J, Lin W, Li S, Li H, Zhou J, Ni P, Dong W, Hu S, Zeng C, Zhang J, Zhang Y, Li R, Xu Z, Li X, Zheng H, Cong L, Lin L, Yin J, Geng J, Li G, Shi J, Liu J, Lv H, Li J, Deng Y, Ran L, Shi X, Wang X, Wu Q, Li C, Ren X, Li D, Liu D, Zhang X, Ji Z, Zhao W, Sun Y, Zhang Z, Bao J, Han Y, Dong L, Ji J, Chen P, Wu S, Xiao Y, Bu D, Tan J, Yang L, Ye C, Xu J, Zhou Y, Yu Y, Zhang B, Zhuang S, Wei H, Liu B, Lei M, Yu H, Li Y, Xu H, Wei S, He X, Fang L, Huang X, Su Z, Tong W, Tong Z, Ye J, Wang L, Lei T, Chen C, Chen H, Huang H, Zhang F, Li N, Zhao C, Huang Y, Li L, Xi Y, Qi Q, Li W, Hu W, Tian X, Jiao Y, Liang X, Jin J, Gao L, Zheng W, Hao B, Liu S, Wang W, Yuan L, Cao M, McDermott J, Samudrala R, Wong GK, Yang H (2005) The genomes of Oryza sativa: a history of duplications. PLoS Biol 3:e38
-
(2005)
PLoS Biol
, vol.3
, pp. 38
-
-
Yu, J.1
Wang, J.2
Lin, W.3
Li, S.4
Li, H.5
Zhou, J.6
Ni, P.7
Dong, W.8
Hu, S.9
Zeng, C.10
Zhang, J.11
Zhang, Y.12
Li, R.13
Xu, Z.14
Li, X.15
Zheng, H.16
Cong, L.17
Lin, L.18
Yin, J.19
Geng, J.20
Li, G.21
Shi, J.22
Liu, J.23
Lv, H.24
Li, J.25
Deng, Y.26
Ran, L.27
Shi, X.28
Wang, X.29
Wu, Q.30
Li, C.31
Ren, X.32
Li, D.33
Liu, D.34
Zhang, X.35
Ji, Z.36
Zhao, W.37
Sun, Y.38
Zhang, Z.39
Bao, J.40
Han, Y.41
Dong, L.42
Ji, J.43
Chen, P.44
Wu, S.45
Xiao, Y.46
Bu, D.47
Tan, J.48
Yang, L.49
Ye, C.50
Xu, J.51
Zhou, Y.52
Yu, Y.53
Zhang, B.54
Zhuang, S.55
Wei, H.56
Liu, B.57
Lei, M.58
Yu, H.59
Li, Y.60
Xu, H.61
Wei, S.62
He, X.63
Fang, L.64
Huang, X.65
Su, Z.66
Tong, W.67
Tong, Z.68
Ye, J.69
Wang, L.70
Lei, T.71
Chen, C.72
Chen, H.73
Huang, H.74
Zhang, F.75
Li, N.76
Zhao, C.77
Huang, Y.78
Li, L.79
Xi, Y.80
Qi, Q.81
Li, W.82
Hu, W.83
Tian, X.84
Jiao, Y.85
Liang, X.86
Jin, J.87
Gao, L.88
Zheng, W.89
Hao, B.90
Liu, S.91
Wang, W.92
Yuan, L.93
Cao, M.94
McDermott, J.95
Samudrala, R.96
Wong, G.K.97
Yang, H.98
more..
-
83
-
-
0037440712
-
Structural divergence of chromosomal segments that arose from successive duplication events in the Arabidopsis genome
-
Ziolkowski PA, Blanc G, Sadowski J (2003) Structural divergence of chromosomal segments that arose from successive duplication events in the Arabidopsis genome. Nucleic Acids Res 31:1339-1350
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 1339-1350
-
-
Ziolkowski, P.A.1
Blanc, G.2
Sadowski, J.3
|