-
1
-
-
67849122320
-
MEME SUITE: Tools for motif discovery and searching
-
(Web Server issue)
-
Bailey, T.L., Boden, M., Buske, F.A., Frith, M., Grant, C.E., Clementi, L., Ren, J., Li, W.W., and Noble, W.S. (2009). MEME SUITE: Tools for motif discovery and searching. Nucleic Acids Res. 37 (Web Server issue): W202-W208.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Bailey, T.L.1
Boden, M.2
Buske, F.A.3
Frith, M.4
Grant, C.E.5
Clementi, L.6
Ren, J.7
Li, W.W.8
Noble, W.S.9
-
2
-
-
0028685490
-
Fitting a mixture model by expectation maximization to discover motifs in biopolymers
-
In (Menlo Park, California: AAAI Press)
-
Bailey, T.L., and Elkan, C. (1994). Fitting a mixture model by expectation maximization to discover motifs in biopolymers. In Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, (Menlo Park, California: AAAI Press), pp. 28-36.
-
(1994)
Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology
, pp. 28-36
-
-
Bailey, T.L.1
Elkan, C.2
-
3
-
-
0001677717
-
Controlling the false discovery rate-A practical and powerful approach to multiple testing
-
Benjamini, Y., and Hochberg, Y. (1995). Controlling the false discovery rate-A practical and powerful approach to multiple testing. J. R. Stat. Soc. B 57: 289-300.
-
(1995)
J. R. Stat. Soc. B
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
4
-
-
0347447343
-
A gene expression map of the Arabidopsis root
-
Birnbaum, K., Shasha, D.E., Wang, J.Y., Jung, J.W., Lambert, G.M., Galbraith, D.W., and Benfey, P.N. (2003). A gene expression map of the Arabidopsis root. Science 302: 1956-1960.
-
(2003)
Science
, vol.302
, pp. 1956-1960
-
-
Birnbaum, K.1
Shasha, D.E.2
Wang, J.Y.3
Jung, J.W.4
Lambert, G.M.5
Galbraith, D.W.6
Benfey, P.N.7
-
5
-
-
57749111824
-
Comparative transcriptomics of Arabidopsis sperm cells
-
Borges, F., Gomes, G., Gardner, R., Moreno, N., McCormick, S., Feijó, J.A., and Becker, J.D. (2008). Comparative transcriptomics of Arabidopsis sperm cells. Plant Physiol. 148: 1168-1181.
-
(2008)
Plant Physiol.
, vol.148
, pp. 1168-1181
-
-
Borges, F.1
Gomes, G.2
Gardner, R.3
Moreno, N.4
McCormick, S.5
Feijó, J.A.6
Becker, J.D.7
-
6
-
-
79952325140
-
MicroRNA activity in the Arabidopsis male germline
-
Borges, F., Pereira, P.A., Slotkin, R.K., Martienssen, R.A., and Becker, J.D. (2011). MicroRNA activity in the Arabidopsis male germline. J. Exp. Bot. 62: 1611-1620.
-
(2011)
J. Exp. Bot.
, vol.62
, pp. 1611-1620
-
-
Borges, F.1
Pereira, P.A.2
Slotkin, R.K.3
Martienssen, R.A.4
Becker, J.D.5
-
7
-
-
0024301235
-
Genes directing flower development in Arabidopsis
-
Bowman, J.L., Smyth, D.R., and Meyerowitz, E.M. (1989). Genes directing flower development in Arabidopsis. Plant Cell 1: 37-52.
-
(1989)
Plant Cell
, vol.1
, pp. 37-52
-
-
Bowman, J.L.1
Smyth, D.R.2
Meyerowitz, E.M.3
-
8
-
-
0025753467
-
Genetic interactions among floral homeotic genes of Arabidopsis
-
Bowman, J.L., Smyth, D.R., and Meyerowitz, E.M. (1991). Genetic interactions among floral homeotic genes of Arabidopsis. Development 112: 1-20.
-
(1991)
Development
, vol.112
, pp. 1-20
-
-
Bowman, J.L.1
Smyth, D.R.2
Meyerowitz, E.M.3
-
9
-
-
38149109010
-
A high-resolution root spatiotemporal map reveals dominant expression patterns
-
Brady, S.M., Orlando, D.A., Lee, J.Y., Wang, J.Y., Koch, J., Dinneny, J.R., Mace, D., Ohler, U., and Benfey, P.N. (2007). A high-resolution root spatiotemporal map reveals dominant expression patterns. Science 318: 801-806.
-
(2007)
Science
, vol.318
, pp. 801-806
-
-
Brady, S.M.1
Orlando, D.A.2
Lee, J.Y.3
Wang, J.Y.4
Koch, J.5
Dinneny, J.R.6
Mace, D.7
Ohler, U.8
Benfey, P.N.9
-
10
-
-
1842587118
-
High-resolution boundary analysis during Arabidopsis thaliana flower development
-
Breuil-Broyer, S., Morel, P., de Almeida-Engler, J., Coustham, V., Negrutiu, I., and Trehin, C. (2004). High-resolution boundary analysis during Arabidopsis thaliana flower development. Plant J. 38: 182-192.
-
(2004)
Plant J.
, vol.38
, pp. 182-192
-
-
Breuil-Broyer, S.1
Morel, P.2
de Almeida-Engler, J.3
Coustham, V.4
Negrutiu, I.5
Trehin, C.6
-
11
-
-
43049100743
-
An Arabidopsis F-box protein acts as a transcriptional co-factor to regulate floral development
-
Chae, E., Tan, Q.K., Hill, T.A., and Irish, V.F. (2008). An Arabidopsis F-box protein acts as a transcriptional co-factor to regulate floral development. Development 135: 1235-1245.
-
(2008)
Development
, vol.135
, pp. 1235-1245
-
-
Chae, E.1
Tan, Q.K.2
Hill, T.A.3
Irish, V.F.4
-
12
-
-
0032447801
-
Floral dip: A simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana
-
Clough, S.J., and Bent, A.F. (1998). Floral dip: A simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J. 16: 735-743.
-
(1998)
Plant J.
, vol.16
, pp. 735-743
-
-
Clough, S.J.1
Bent, A.F.2
-
13
-
-
0026417225
-
The war of the whorls: Genetic interactions controlling flower development
-
Coen, E.S., and Meyerowitz, E.M. (1991). The war of the whorls: Genetic interactions controlling flower development. Nature 353: 31-37.
-
(1991)
Nature
, vol.353
, pp. 31-37
-
-
Coen, E.S.1
Meyerowitz, E.M.2
-
14
-
-
32644481938
-
Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis
-
Czechowski, T., Stitt, M., Altmann, T., Udvardi, M.K., and Scheible, W.R. (2005). Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis. Plant Physiol. 139: 5-17.
-
(2005)
Plant Physiol.
, vol.139
, pp. 5-17
-
-
Czechowski, T.1
Stitt, M.2
Altmann, T.3
Udvardi, M.K.4
Scheible, W.R.5
-
15
-
-
9144238749
-
The ethanol switch: A tool for tissue-specific gene induction during plant development
-
Deveaux, Y., Peaucelle, A., Roberts, G.R., Coen, E., Simon, R., Mizukami, Y., Traas, J., Murray, J.A.H., Doonan, J.H., and Laufs, P. (2003). The ethanol switch: A tool for tissue-specific gene induction during plant development. Plant J. 36: 918-930.
-
(2003)
Plant J.
, vol.36
, pp. 918-930
-
-
Deveaux, Y.1
Peaucelle, A.2
Roberts, G.R.3
Coen, E.4
Simon, R.5
Mizukami, Y.6
Traas, J.7
Murray, J.A.H.8
Doonan, J.H.9
Laufs, P.10
-
16
-
-
7944230847
-
The SEP4 gene of Arabidopsis thaliana functions in floral organ and meristem identity
-
Ditta, G., Pinyopich, A., Robles, P., Pelaz, S., and Yanofsky, M.F. (2004). The SEP4 gene of Arabidopsis thaliana functions in floral organ and meristem identity. Curr. Biol. 14: 1935-1940.
-
(2004)
Curr. Biol.
, vol.14
, pp. 1935-1940
-
-
Ditta, G.1
Pinyopich, A.2
Robles, P.3
Pelaz, S.4
Yanofsky, M.F.5
-
17
-
-
79751525328
-
MADS: The missing link between identity and growth?
-
Dornelas, M.C., Patreze, C.M., Angenent, G.C., and Immink, R.G. (2011). MADS: The missing link between identity and growth? Trends Plant Sci. 16: 89-97.
-
(2011)
Trends Plant Sci.
, vol.16
, pp. 89-97
-
-
Dornelas, M.C.1
Patreze, C.M.2
Angenent, G.C.3
Immink, R.G.4
-
18
-
-
0025891885
-
Negative regulation of the Arabidopsis homeotic gene AGAMOUS by the APETALA2 product
-
Drews, G.N., Bowman, J.L., and Meyerowitz, E.M. (1991). Negative regulation of the Arabidopsis homeotic gene AGAMOUS by the APETALA2 product. Cell 65: 991-1002.
-
(1991)
Cell
, vol.65
, pp. 991-1002
-
-
Drews, G.N.1
Bowman, J.L.2
Meyerowitz, E.M.3
-
19
-
-
62349102835
-
GenomeGraphs: Integrated genomic data visualization with R
-
Durinck, S., Bullard, J., Spellman, P.T., and Dudoit, S. (2009). GenomeGraphs: Integrated genomic data visualization with R. BMC Bioinformatics 10: 2.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 2
-
-
Durinck, S.1
Bullard, J.2
Spellman, P.T.3
Dudoit, S.4
-
20
-
-
0025978277
-
A simple and rapid method for the preparation of plant genomic DNA for PCR analysis
-
Edwards, K., Johnstone, C., and Thompson, C. (1991). A simple and rapid method for the preparation of plant genomic DNA for PCR analysis. Nucleic Acids Res. 19: 1349.
-
(1991)
Nucleic Acids Res.
, vol.19
, pp. 1349
-
-
Edwards, K.1
Johnstone, C.2
Thompson, C.3
-
21
-
-
0346888549
-
A contradictory GLABRA3 allele helps define gene interactions controlling trichome development in Arabidopsis
-
Esch, J.J., Chen, M., Sanders, M., Hillestad, M., Ndkium, S., Idelkope, B., Neizer, J., and Marks, M.D. (2003). A contradictory GLABRA3 allele helps define gene interactions controlling trichome development in Arabidopsis. Development 130: 5885-5894.
-
(2003)
Development
, vol.130
, pp. 5885-5894
-
-
Esch, J.J.1
Chen, M.2
Sanders, M.3
Hillestad, M.4
Ndkium, S.5
Idelkope, B.6
Neizer, J.7
Marks, M.D.8
-
22
-
-
0035928780
-
Establishment of polarity in lateral organs of plants
-
Eshed, Y., Baum, S.F., Perea, J.V., and Bowman, J.L. (2001). Establishment of polarity in lateral organs of plants. Curr. Biol. 11: 1251-1260.
-
(2001)
Curr. Biol.
, vol.11
, pp. 1251-1260
-
-
Eshed, Y.1
Baum, S.F.2
Perea, J.V.3
Bowman, J.L.4
-
23
-
-
78049414227
-
Epigenetic reprogramming in plant and animal development
-
Feng, S., Jacobsen, S.E., and Reik, W. (2010). Epigenetic reprogramming in plant and animal development. Science 330: 622-627.
-
(2010)
Science
, vol.330
, pp. 622-627
-
-
Feng, S.1
Jacobsen, S.E.2
Reik, W.3
-
24
-
-
34250794466
-
Integration of cytokinin and gibberellin signalling by Arabidopsis transcription factors GIS, ZFP8 and GIS2 in the regulation of epidermal cell fate
-
Gan, Y., Liu, C., Yu, H., and Broun, P. (2007). Integration of cytokinin and gibberellin signalling by Arabidopsis transcription factors GIS, ZFP8 and GIS2 in the regulation of epidermal cell fate. Development 134: 2073-2081.
-
(2007)
Development
, vol.134
, pp. 2073-2081
-
-
Gan, Y.1
Liu, C.2
Yu, H.3
Broun, P.4
-
25
-
-
14044270789
-
Transcriptional program controlled by the floral homeotic gene AGAMOUS during early organogenesis
-
Gómez-Mena, C., de Folter, S., Costa, M.M., Angenent, G.C., and Sablowski, R. (2005). Transcriptional program controlled by the floral homeotic gene AGAMOUS during early organogenesis. Development 132: 429-438.
-
(2005)
Development
, vol.132
, pp. 429-438
-
-
Gómez-Mena, C.1
de Folter, S.2
Costa, M.M.3
Angenent, G.C.4
Sablowski, R.5
-
26
-
-
0028364530
-
Function and regulation of the Arabidopsis floral homeotic gene PISTILLATA
-
Goto, K., and Meyerowitz, E.M. (1994). Function and regulation of the Arabidopsis floral homeotic gene PISTILLATA. Genes Dev. 8: 1548-1560.
-
(1994)
Genes Dev.
, vol.8
, pp. 1548-1560
-
-
Goto, K.1
Meyerowitz, E.M.2
-
27
-
-
36148948633
-
The HECATE genes regulate female reproductive tract development in Arabidopsis thaliana
-
Gremski, K., Ditta, G., and Yanofsky, M.F. (2007). The HECATE genes regulate female reproductive tract development in Arabidopsis thaliana. Development 134: 3593-3601.
-
(2007)
Development
, vol.134
, pp. 3593-3601
-
-
Gremski, K.1
Ditta, G.2
Yanofsky, M.F.3
-
28
-
-
0028178790
-
Regulation of the Arabidopsis floral homeotic gene APETALA1
-
Gustafson-Brown, C., Savidge, B., and Yanofsky, M.F. (1994). Regulation of the Arabidopsis floral homeotic gene APETALA1. Cell 76: 131-143.
-
(1994)
Cell
, vol.76
, pp. 131-143
-
-
Gustafson-Brown, C.1
Savidge, B.2
Yanofsky, M.F.3
-
29
-
-
0035945635
-
Complexes of MADS-box proteins are sufficient to convert leaves into floral organs
-
Honma, T., and Goto, K. (2001). Complexes of MADS-box proteins are sufficient to convert leaves into floral organs. Nature 409: 525-529.
-
(2001)
Nature
, vol.409
, pp. 525-529
-
-
Honma, T.1
Goto, K.2
-
30
-
-
17844410215
-
Transcriptome analysis of haploid male gametophyte development in Arabidopsis
-
Honys, D., and Twell, D. (2004). Transcriptome analysis of haploid male gametophyte development in Arabidopsis. Genome Biol. 5: R85.
-
(2004)
Genome Biol.
, vol.5
-
-
Honys, D.1
Twell, D.2
-
31
-
-
33750574346
-
Large-scale histological analysis of leaf mutants using two simple leaf observation methods: Identification of novel genetic pathways governing the size and shape of leaves
-
Horiguchi, G., Fujikura, U., Ferjani, A., Ishikawa, N., and Tsukaya, H. (2006). Large-scale histological analysis of leaf mutants using two simple leaf observation methods: Identification of novel genetic pathways governing the size and shape of leaves. Plant J. 48: 638-644.
-
(2006)
Plant J.
, vol.48
, pp. 638-644
-
-
Horiguchi, G.1
Fujikura, U.2
Ferjani, A.3
Ishikawa, N.4
Tsukaya, H.5
-
32
-
-
53149142761
-
Shaping segments: Hox gene function in the genomic age
-
Hueber, S.D., and Lohmann, I. (2008). Shaping segments: Hox gene function in the genomic age. Bioessays 30: 965-979.
-
(2008)
Bioessays
, vol.30
, pp. 965-979
-
-
Hueber, S.D.1
Lohmann, I.2
-
33
-
-
75849155011
-
The 'ABC' of MADS domain protein behaviour and interactions
-
Immink, R.G., Kaufmann, K., and Angenent, G.C. (2010). The 'ABC' of MADS domain protein behaviour and interactions. Semin. Cell Dev. Biol. 21: 87-93.
-
(2010)
Semin. Cell Dev. Biol.
, vol.21
, pp. 87-93
-
-
Immink, R.G.1
Kaufmann, K.2
Angenent, G.C.3
-
34
-
-
0025465594
-
Function of the apetala-1 gene during Arabidopsis floral development
-
Irish, V.F., and Sussex, I.M. (1990). Function of the apetala-1 gene during Arabidopsis floral development. Plant Cell 2: 741-753.
-
(1990)
Plant Cell
, vol.2
, pp. 741-753
-
-
Irish, V.F.1
Sussex, I.M.2
-
35
-
-
37849044669
-
The homeotic protein AGAMOUS controls late stamen development by regulating a jasmonate biosynthetic gene in Arabidopsis
-
Ito, T., Ng, K.H., Lim, T.S., Yu, H., and Meyerowitz, E.M. (2007). The homeotic protein AGAMOUS controls late stamen development by regulating a jasmonate biosynthetic gene in Arabidopsis. Plant Cell 19: 3516-3529.
-
(2007)
Plant Cell
, vol.19
, pp. 3516-3529
-
-
Ito, T.1
Ng, K.H.2
Lim, T.S.3
Yu, H.4
Meyerowitz, E.M.5
-
36
-
-
3142750536
-
The homeotic protein AGAMOUS controls microsporogenesis by regulation of SPOROCYTELESS
-
Ito, T., Wellmer, F., Yu, H., Das, P., Ito, N., Alves-Ferreira, M., Riechmann, J.L., and Meyerowitz, E.M. (2004). The homeotic protein AGAMOUS controls microsporogenesis by regulation of SPOROCYTELESS. Nature 430: 356-360.
-
(2004)
Nature
, vol.430
, pp. 356-360
-
-
Ito, T.1
Wellmer, F.2
Yu, H.3
Das, P.4
Ito, N.5
Alves-Ferreira, M.6
Riechmann, J.L.7
Meyerowitz, E.M.8
-
37
-
-
0026532893
-
The homeotic gene APETALA3 of Arabidopsis thaliana encodes a MADS box and is expressed in petals and stamens
-
Jack, T., Brockman, L.L., and Meyerowitz, E.M. (1992). The homeotic gene APETALA3 of Arabidopsis thaliana encodes a MADS box and is expressed in petals and stamens. Cell 68: 683-697.
-
(1992)
Cell
, vol.68
, pp. 683-697
-
-
Jack, T.1
Brockman, L.L.2
Meyerowitz, E.M.3
-
38
-
-
77957799907
-
Cell-type specific analysis of translating RNAs in developing flowers reveals new levels of control
-
Jiao, Y., and Meyerowitz, E.M. (2010). Cell-type specific analysis of translating RNAs in developing flowers reveals new levels of control. Mol. Syst. Biol. 6: 419.
-
(2010)
Mol. Syst. Biol.
, vol.6
, pp. 419
-
-
Jiao, Y.1
Meyerowitz, E.M.2
-
39
-
-
0028500824
-
Control of Arabidopsis flower and seed development by the homeotic gene APETALA2
-
Jofuku, K.D., den Boer, B.G., Van Montagu, M., and Okamuro, J.K. (1994). Control of Arabidopsis flower and seed development by the homeotic gene APETALA2. Plant Cell 6: 1211-1225.
-
(1994)
Plant Cell
, vol.6
, pp. 1211-1225
-
-
Jofuku, K.D.1
den Boer, B.G.2
van Montagu, M.3
Okamuro, J.K.4
-
40
-
-
65949090511
-
Target genes of the MADS transcription factor SEPALLATA3: Integration of developmental and hormonal pathways in the Arabidopsis flower
-
Kaufmann, K., Muiño, J.M., Jauregui, R., Airoldi, C.A., Smaczniak, C., Krajewski, P., and Angenent, G.C. (2009). Target genes of the MADS transcription factor SEPALLATA3: Integration of developmental and hormonal pathways in the Arabidopsis flower. PLoS Biol. 7: e1000090.
-
(2009)
PLoS Biol.
, vol.7
-
-
Kaufmann, K.1
Muiño, J.M.2
Jauregui, R.3
Airoldi, C.A.4
Smaczniak, C.5
Krajewski, P.6
Angenent, G.C.7
-
41
-
-
77950500412
-
Orchestration of floral initiation by APETALA1
-
Kaufmann, K., Wellmer, F., Muiño, J.M., Ferrier, T., Wuest, S.E., Kumar, V., Serrano-Mislata, A., Madueño, F., Krajewski, P., Meyerowitz, E.M., Angenent, G.C., and Riechmann, J.L. (2010). Orchestration of floral initiation by APETALA1. Science 328: 85-89.
-
(2010)
Science
, vol.328
, pp. 85-89
-
-
Kaufmann, K.1
Wellmer, F.2
Muiño, J.M.3
Ferrier, T.4
Wuest, S.E.5
Kumar, V.6
Serrano-Mislata, A.7
Madueño, F.8
Krajewski, P.9
Meyerowitz, E.M.10
Angenent, G.C.11
Riechmann, J.L.12
-
42
-
-
33644852133
-
RABBIT EARS is a second-whorl repressor of AGAMOUS that maintains spatial boundaries in Arabidopsis flowers
-
Krizek, B.A., Lewis, M.W., and Fletcher, J.C. (2006). RABBIT EARS is a second-whorl repressor of AGAMOUS that maintains spatial boundaries in Arabidopsis flowers. Plant J. 45: 369-383.
-
(2006)
Plant J.
, vol.45
, pp. 369-383
-
-
Krizek, B.A.1
Lewis, M.W.2
Fletcher, J.C.3
-
43
-
-
0027995660
-
Roles of the GLABROUS1 and TRANSPARENT TESTA GLABRA genes in Arabidopsis trichome development
-
Larkin, J.C., Oppenheimer, D.G., Lloyd, A.M., Paparozzi, E.T., and Marks, M.D. (1994). Roles of the GLABROUS1 and TRANSPARENT TESTA GLABRA genes in Arabidopsis trichome development. Plant Cell 6: 1065-1076.
-
(1994)
Plant Cell
, vol.6
, pp. 1065-1076
-
-
Larkin, J.C.1
Oppenheimer, D.G.2
Lloyd, A.M.3
Paparozzi, E.T.4
Marks, M.D.5
-
44
-
-
77249170184
-
Establishing, maintaining and modifying DNA methylation patterns in plants and animals
-
Law, J.A., and Jacobsen, S.E. (2010). Establishing, maintaining and modifying DNA methylation patterns in plants and animals. Nat. Rev. Genet. 11: 204-220.
-
(2010)
Nat. Rev. Genet.
, vol.11
, pp. 204-220
-
-
Law, J.A.1
Jacobsen, S.E.2
-
45
-
-
77952382638
-
Global analysis of gene activity during Arabidopsis seed development and identification of seed-specific transcription factors
-
Le, B.H., et al. (2010). Global analysis of gene activity during Arabidopsis seed development and identification of seed-specific transcription factors. Proc. Natl. Acad. Sci. USA 107: 8063-8070.
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 8063-8070
-
-
Le, B.H.1
-
46
-
-
0034643351
-
SHATTERPROOF MADS-box genes control seed dispersal in Arabidopsis
-
Liljegren, S.J., Ditta, G.S., Eshed, Y., Savidge, B., Bowman, J.L., and Yanofsky, M.F. (2000). SHATTERPROOF MADS-box genes control seed dispersal in Arabidopsis. Nature 404: 766-770.
-
(2000)
Nature
, vol.404
, pp. 766-770
-
-
Liljegren, S.J.1
Ditta, G.S.2
Eshed, Y.3
Savidge, B.4
Bowman, J.L.5
Yanofsky, M.F.6
-
47
-
-
82755174071
-
AGAMOUS terminates floral stem cell maintenance in Arabidopsis by directly repressing WUSCHEL through recruitment of Polycomb Group proteins
-
Liu, X., Kim, Y.J., Müller, R., Yumul, R.E., Liu, C., Pan, Y., Cao, X., Goodrich, J., and Chen, X. (2011). AGAMOUS terminates floral stem cell maintenance in Arabidopsis by directly repressing WUSCHEL through recruitment of Polycomb Group proteins. Plant Cell 23: 3654-3670.
-
(2011)
Plant Cell
, vol.23
, pp. 3654-3670
-
-
Liu, X.1
Kim, Y.J.2
Müller, R.3
Yumul, R.E.4
Liu, C.5
Pan, Y.6
Cao, X.7
Goodrich, J.8
Chen, X.9
-
48
-
-
0035710746
-
Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T) method
-
Livak, K.J., and Schmittgen, T.D. (2001). Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T) method. Methods 25: 402-408.
-
(2001)
Methods
, vol.25
, pp. 402-408
-
-
Livak, K.J.1
Schmittgen, T.D.2
-
49
-
-
0027123417
-
Molecular characterization of the Arabidopsis floral homeotic gene APETALA1
-
Mandel, M.A., Gustafson-Brown, C., Savidge, B., and Yanofsky, M.F. (1992). Molecular characterization of the Arabidopsis floral homeotic gene APETALA1. Nature 360: 273-277.
-
(1992)
Nature
, vol.360
, pp. 273-277
-
-
Mandel, M.A.1
Gustafson-Brown, C.2
Savidge, B.3
Yanofsky, M.F.4
-
50
-
-
77955961894
-
VERDANDI is a direct target of the MADS domain ovule identity complex and affects embryo sac differentiation in Arabidopsis
-
Matias-Hernandez, L., Battaglia, R., Galbiati, F., Rubes, M., Eichenberger, C., Grossniklaus, U., Kater, M.M., and Colombo, L. (2010). VERDANDI is a direct target of the MADS domain ovule identity complex and affects embryo sac differentiation in Arabidopsis. Plant Cell 22: 1702-1715.
-
(2010)
Plant Cell
, vol.22
, pp. 1702-1715
-
-
Matias-Hernandez, L.1
Battaglia, R.2
Galbiati, F.3
Rubes, M.4
Eichenberger, C.5
Grossniklaus, U.6
Kater, M.M.7
Colombo, L.8
-
51
-
-
0025384684
-
Improved binary vectors for Agrobacterium-mediated plant transformation
-
McBride, K.E., and Summerfelt, K.R. (1990). Improved binary vectors for Agrobacterium-mediated plant transformation. Plant Mol. Biol. 14: 269-276.
-
(1990)
Plant Mol. Biol.
, vol.14
, pp. 269-276
-
-
McBride, K.E.1
Summerfelt, K.R.2
-
52
-
-
0001116674
-
Abnormal flowers and pattern formation in floral development
-
Meyerowitz, E.M., Smyth, D.R., and Bowman, J.L. (1989). Abnormal flowers and pattern formation in floral development. Development 106: 209-217.
-
(1989)
Development
, vol.106
, pp. 209-217
-
-
Meyerowitz, E.M.1
Smyth, D.R.2
Bowman, J.L.3
-
53
-
-
79955676389
-
ChIP-seq Analysis in R (CSAR): An R package for the statistical detection of protein-bound genomic regions
-
Muiño, J.M., Kaufmann, K., van Ham, R.C., Angenent, G.C., and Krajewski, P. (2011). ChIP-seq Analysis in R (CSAR): An R package for the statistical detection of protein-bound genomic regions. Plant Methods 7: 11.
-
(2011)
Plant Methods
, vol.7
, pp. 11
-
-
Muiño, J.M.1
Kaufmann, K.2
van Ham, R.C.3
Angenent, G.C.4
Krajewski, P.5
-
54
-
-
0032078072
-
dCAPS, a simple technique for the genetic analysis of single nucleotide polymorphisms: Experimental applications in Arabidopsis thaliana genetics
-
Neff, M.M., Neff, J.D., Chory, J., and Pepper, A.E. (1998). dCAPS, a simple technique for the genetic analysis of single nucleotide polymorphisms: Experimental applications in Arabidopsis thaliana genetics. Plant J. 14: 387-392.
-
(1998)
Plant J.
, vol.14
, pp. 387-392
-
-
Neff, M.M.1
Neff, J.D.2
Chory, J.3
Pepper, A.E.4
-
55
-
-
0035125781
-
Conversion of leaves into petals in Arabidopsis
-
Pelaz, S., Tapia-López, R., Alvarez-Buylla, E.R., and Yanofsky, M.F. (2001). Conversion of leaves into petals in Arabidopsis. Curr. Biol. 11: 182-184.
-
(2001)
Curr. Biol.
, vol.11
, pp. 182-184
-
-
Pelaz, S.1
Tapia-López, R.2
Alvarez-Buylla, E.R.3
Yanofsky, M.F.4
-
56
-
-
0029955595
-
Dimerization specificity of Arabidopsis MADS domain homeotic proteins APETALA1, APETALA3, PISTILLATA, and AGAMOUS
-
Riechmann, J.L., Krizek, B.A., and Meyerowitz, E.M. (1996a). Dimerization specificity of Arabidopsis MADS domain homeotic proteins APETALA1, APETALA3, PISTILLATA, and AGAMOUS. Proc. Natl. Acad. Sci. USA 93: 4793-4798.
-
(1996)
Proc. Natl. Acad. Sci. USA
, vol.93
, pp. 4793-4798
-
-
Riechmann, J.L.1
Krizek, B.A.2
Meyerowitz, E.M.3
-
57
-
-
0029736777
-
DNAbinding properties of Arabidopsis MADS domain homeotic proteins APETALA1, APETALA3, PISTILLATA and AGAMOUS
-
Riechmann, J.L., Wang, M., and Meyerowitz, E.M. (1996b). DNAbinding properties of Arabidopsis MADS domain homeotic proteins APETALA1, APETALA3, PISTILLATA and AGAMOUS. Nucleic Acids Res. 24: 3134-3141.
-
(1996)
Nucleic Acids Res.
, vol.24
, pp. 3134-3141
-
-
Riechmann, J.L.1
Wang, M.2
Meyerowitz, E.M.3
-
58
-
-
35748949257
-
A comparison of background correction methods for two-colour microarrays
-
Ritchie, M.E., Silver, J., Oshlack, A., Holmes, M., Diyagama, D., Holloway, A., and Smyth, G.K. (2007). A comparison of background correction methods for two-colour microarrays. Bioinformatics 23: 2700-2707.
-
(2007)
Bioinformatics
, vol.23
, pp. 2700-2707
-
-
Ritchie, M.E.1
Silver, J.2
Oshlack, A.3
Holmes, M.4
Diyagama, D.5
Holloway, A.6
Smyth, G.K.7
-
59
-
-
67149111588
-
Evolution of the B3 DNA binding superfamily: New insights into REM family gene diversification
-
Romanel, E.A., Schrago, C.G., Couñago, R.M., Russo, C.A., and Alves-Ferreira, M. (2009). Evolution of the B3 DNA binding superfamily: new insights into REM family gene diversification. PLoS ONE 4: e5791.
-
(2009)
PLoS ONE
, vol.4
-
-
Romanel, E.A.1
Schrago, C.G.2
Couñago, R.M.3
Russo, C.A.4
Alves-Ferreira, M.5
-
60
-
-
0034768209
-
Characterization of the ethanol-inducible alc gene-expression system in Arabidopsis thaliana
-
Roslan, H.A., Salter, M.G., Wood, C.D., White, M.R., Croft, K.P., Robson, F., Coupland, G., Doonan, J., Laufs, P., Tomsett, A.B., and Caddick, M.X. (2001). Characterization of the ethanol-inducible alc gene-expression system in Arabidopsis thaliana. Plant J. 28: 225-235.
-
(2001)
Plant J.
, vol.28
, pp. 225-235
-
-
Roslan, H.A.1
Salter, M.G.2
Wood, C.D.3
White, M.R.4
Croft, K.P.5
Robson, F.6
Coupland, G.7
Doonan, J.8
Laufs, P.9
Tomsett, A.B.10
Caddick, M.X.11
-
61
-
-
75849116362
-
Genes and functions controlled by floral organ identity genes
-
Sablowski, R. (2010). Genes and functions controlled by floral organ identity genes. Semin. Cell Dev. Biol. 21: 94-99.
-
(2010)
Semin. Cell Dev. Biol.
, vol.21
, pp. 94-99
-
-
Sablowski, R.1
-
62
-
-
0033791933
-
Regulation of SUP expression identifies multiple regulators involved in Arabidopsis floral meristem development
-
Sakai, H., Krizek, B.A., Jacobsen, S.E., and Meyerowitz, E.M. (2000). Regulation of SUP expression identifies multiple regulators involved in Arabidopsis floral meristem development. Plant Cell 12: 1607-1618.
-
(2000)
Plant Cell
, vol.12
, pp. 1607-1618
-
-
Sakai, H.1
Krizek, B.A.2
Jacobsen, S.E.3
Meyerowitz, E.M.4
-
63
-
-
0029310550
-
Temporal relationship between the transcription of two Arabidopsis MADS box genes and the floral organ identity genes
-
Savidge, B., Rounsley, S.D., and Yanofsky, M.F. (1995). Temporal relationship between the transcription of two Arabidopsis MADS box genes and the floral organ identity genes. Plant Cell 7: 721-733.
-
(1995)
Plant Cell
, vol.7
, pp. 721-733
-
-
Savidge, B.1
Rounsley, S.D.2
Yanofsky, M.F.3
-
64
-
-
0036790620
-
TRIPTYCHON and CAPRICE mediate lateral inhibition during trichome and root hair patterning in Arabidopsis
-
Schellmann, S., Schnittger, A., Kirik, V., Wada, T., Okada, K., Beermann, A., Thumfahrt, J., Jürgens, G., and Hülskamp, M. (2002). TRIPTYCHON and CAPRICE mediate lateral inhibition during trichome and root hair patterning in Arabidopsis. EMBO J. 21: 5036-5046.
-
(2002)
EMBO J.
, vol.21
, pp. 5036-5046
-
-
Schellmann, S.1
Schnittger, A.2
Kirik, V.3
Wada, T.4
Okada, K.5
Beermann, A.6
Thumfahrt, J.7
Jürgens, G.8
Hülskamp, M.9
-
65
-
-
16244362244
-
A gene expression map of Arabidopsis thaliana development
-
Schmid, M., Davison, T.S., Henz, S.R., Pape, U.J., Demar, M., Vingron, M., Schölkopf, B., Weigel, D., and Lohmann, J.U. (2005). A gene expression map of Arabidopsis thaliana development. Nat. Genet. 37: 501-506.
-
(2005)
Nat. Genet.
, vol.37
, pp. 501-506
-
-
Schmid, M.1
Davison, T.S.2
Henz, S.R.3
Pape, U.J.4
Demar, M.5
Vingron, M.6
Schölkopf, B.7
Weigel, D.8
Lohmann, J.U.9
-
66
-
-
80053305681
-
Transcriptome analysis of the Arabidopsis megaspore mother cell uncovers the importance of RNA helicases for plant germline development
-
Schmidt, A., Wuest, S.E., Vijverberg, K., Baroux, C., Kleen, D., and Grossniklaus, U. (2011). Transcriptome analysis of the Arabidopsis megaspore mother cell uncovers the importance of RNA helicases for plant germline development. PLoS Biol. 9: e1001155.
-
(2011)
PLoS Biol.
, vol.9
-
-
Schmidt, A.1
Wuest, S.E.2
Vijverberg, K.3
Baroux, C.4
Kleen, D.5
Grossniklaus, U.6
-
67
-
-
2642614525
-
Tissue layer and organ specificity of trichome formation are regulated by GLABRA1 and TRIPTYCHON in Arabidopsis
-
Schnittger, A., Jürgens, G., and Hülskamp, M. (1998). Tissue layer and organ specificity of trichome formation are regulated by GLABRA1 and TRIPTYCHON in Arabidopsis. Development 125: 2283-2289.
-
(1998)
Development
, vol.125
, pp. 2283-2289
-
-
Schnittger, A.1
Jürgens, G.2
Hülskamp, M.3
-
68
-
-
33745393624
-
Highly specific gene silencing by artificial microRNAs in Arabidopsis
-
Schwab, R., Ossowski, S., Riester, M., Warthmann, N., and Weigel, D. (2006). Highly specific gene silencing by artificial microRNAs in Arabidopsis. Plant Cell 18: 1121-1133.
-
(2006)
Plant Cell
, vol.18
, pp. 1121-1133
-
-
Schwab, R.1
Ossowski, S.2
Riester, M.3
Warthmann, N.4
Weigel, D.5
-
69
-
-
61449107655
-
Microarray background correction: Maximum likelihood estimation for the normal-exponential convolution
-
Silver, J.D., Ritchie, M.E., and Smyth, G.K. (2009). Microarray background correction: Maximum likelihood estimation for the normal-exponential convolution. Biostatistics 10: 352-363.
-
(2009)
Biostatistics
, vol.10
, pp. 352-363
-
-
Silver, J.D.1
Ritchie, M.E.2
Smyth, G.K.3
-
70
-
-
84863116642
-
Characterization of MADS-domain transcription factor complexes in Arabidopsis flower development
-
Smaczniak, C., et al. (2012). Characterization of MADS-domain transcription factor complexes in Arabidopsis flower development. Proc. Natl. Acad. Sci. USA 109: 1560-1565.
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
, pp. 1560-1565
-
-
Smaczniak, C.1
-
71
-
-
0025465516
-
Early flower development in Arabidopsis
-
Smyth, D.R., Bowman, J.L., and Meyerowitz, E.M. (1990). Early flower development in Arabidopsis. Plant Cell 2: 755-767.
-
(1990)
Plant Cell
, vol.2
, pp. 755-767
-
-
Smyth, D.R.1
Bowman, J.L.2
Meyerowitz, E.M.3
-
72
-
-
4544341015
-
Linear models and empirical Bayes methods for assessing differential expression in microarray experiments
-
Article3
-
Smyth, G.K. (2004). Linear models and empirical Bayes methods for assessing differential expression in microarray experiments. Stat. Appl. Genet. Mol. Biol. 3: Article3.
-
(2004)
Stat. Appl. Genet. Mol. Biol.
, vol.3
-
-
Smyth, G.K.1
-
73
-
-
0242333835
-
Normalization of cDNA microarray data
-
Smyth, G.K., and Speed, T. (2003). Normalization of cDNA microarray data. Methods 31: 265-273.
-
(2003)
Methods
, vol.31
, pp. 265-273
-
-
Smyth, G.K.1
Speed, T.2
-
74
-
-
84857701849
-
The Arabidopsis O-linked N-acetylglucosamine transferase SPINDLY interacts with class I TCPs to facilitate cytokinin responses in leaves and flowers
-
Steiner, E., Efroni, I., Gopalraj, M., Saathoff, K., Tseng, T.S., Kieffer, M., Eshed, Y., Olszewski, N., and Weiss, D. (2012). The Arabidopsis O-linked N-acetylglucosamine transferase SPINDLY interacts with class I TCPs to facilitate cytokinin responses in leaves and flowers. Plant Cell 24: 96-108.
-
(2012)
Plant Cell
, vol.24
, pp. 96-108
-
-
Steiner, E.1
Efroni, I.2
Gopalraj, M.3
Saathoff, K.4
Tseng, T.S.5
Kieffer, M.6
Eshed, Y.7
Olszewski, N.8
Weiss, D.9
-
75
-
-
84872614860
-
Comprehensive analysis of silencing mutants reveals complex regulation of the Arabidopsis methylome
-
Stroud, H., Greenberg, M.V., Feng, S., Bernatavichute, Y.V., and Jacobsen, S.E. (2013). Comprehensive analysis of silencing mutants reveals complex regulation of the Arabidopsis methylome. Cell 152: 352-364.
-
(2013)
Cell
, vol.152
, pp. 352-364
-
-
Stroud, H.1
Greenberg, M.V.2
Feng, S.3
Bernatavichute, Y.V.4
Jacobsen, S.E.5
-
76
-
-
68149157964
-
A timing mechanism for stem cell maintenance and differentiation in the Arabidopsis floral meristem
-
Sun, B., Xu, Y., Ng, K.H., and Ito, T. (2009). A timing mechanism for stem cell maintenance and differentiation in the Arabidopsis floral meristem. Genes Dev. 23: 1791-1804.
-
(2009)
Genes Dev.
, vol.23
, pp. 1791-1804
-
-
Sun, B.1
Xu, Y.2
Ng, K.H.3
Ito, T.4
-
77
-
-
33646269054
-
Direct regulation of the floral homeotic APETALA1 gene by APETALA3 and PISTILLATA in Arabidopsis
-
Sundström, J.F., Nakayama, N., Glimelius, K., and Irish, V.F. (2006). Direct regulation of the floral homeotic APETALA1 gene by APETALA3 and PISTILLATA in Arabidopsis. Plant J. 46: 593-600.
-
(2006)
Plant J.
, vol.46
, pp. 593-600
-
-
Sundström, J.F.1
Nakayama, N.2
Glimelius, K.3
Irish, V.F.4
-
78
-
-
0010277713
-
-
(London: Taylor & Francis)
-
Theissen, G., Becker, A., Winter, K.U., Muenster, T., Kirchner, C., and Saedler, H. (2002). How the Land Plants Learned Their Floral ABCs: The role of MADS Box Genes in the Evolutionary Origin of Flowers. (London: Taylor & Francis).
-
(2002)
How the Land Plants Learned Their Floral ABCs: The role of MADS Box Genes in the Evolutionary Origin of Flowers.
-
-
Theissen, G.1
Becker, A.2
Winter, K.U.3
Muenster, T.4
Kirchner, C.5
Saedler, H.6
-
80
-
-
36549052198
-
TRICHOMELESS1 regulates trichome patterning by suppressing GLABRA1 in Arabidopsis
-
Wang, S., Kwak, S.H., Zeng, Q., Ellis, B.E., Chen, X.Y., Schiefelbein, J., and Chen, J.G. (2007). TRICHOMELESS1 regulates trichome patterning by suppressing GLABRA1 in Arabidopsis. Development 134: 3873-3882.
-
(2007)
Development
, vol.134
, pp. 3873-3882
-
-
Wang, S.1
Kwak, S.H.2
Zeng, Q.3
Ellis, B.E.4
Chen, X.Y.5
Schiefelbein, J.6
Chen, J.G.7
-
81
-
-
33746591797
-
Genome-wide analysis of gene expression during early Arabidopsis flower development
-
Wellmer, F., Alves-Ferreira, M., Dubois, A., Riechmann, J.L., and Meyerowitz, E.M. (2006). Genome-wide analysis of gene expression during early Arabidopsis flower development. PLoS Genet. 2: e117.
-
(2006)
PLoS Genet.
, vol.2
-
-
Wellmer, F.1
Alves-Ferreira, M.2
Dubois, A.3
Riechmann, J.L.4
Meyerowitz, E.M.5
-
82
-
-
26444509696
-
Gene network analysis in plant development by genomic technologies
-
Wellmer, F., and Riechmann, J.L. (2005). Gene network analysis in plant development by genomic technologies. Int. J. Dev. Biol. 49: 745-759.
-
(2005)
Int. J. Dev. Biol.
, vol.49
, pp. 745-759
-
-
Wellmer, F.1
Riechmann, J.L.2
-
83
-
-
2442497313
-
Genome-wide analysis of spatial gene expression in Arabidopsis flowers
-
Wellmer, F., Riechmann, J.L., Alves-Ferreira, M., and Meyerowitz, E.M. (2004). Genome-wide analysis of spatial gene expression in Arabidopsis flowers. Plant Cell 16: 1314-1326.
-
(2004)
Plant Cell
, vol.16
, pp. 1314-1326
-
-
Wellmer, F.1
Riechmann, J.L.2
Alves-Ferreira, M.3
Meyerowitz, E.M.4
-
84
-
-
77955889132
-
ROAST: Rotation gene set tests for complex microarray experiments
-
Wu, D., Lim, E., Vaillant, F., Asselin-Labat, M.L., Visvader, J.E., and Smyth, G.K. (2010). ROAST: Rotation gene set tests for complex microarray experiments. Bioinformatics 26: 2176-2182.
-
(2010)
Bioinformatics
, vol.26
, pp. 2176-2182
-
-
Wu, D.1
Lim, E.2
Vaillant, F.3
Asselin-Labat, M.L.4
Visvader, J.E.5
Smyth, G.K.6
-
85
-
-
84865176413
-
Molecular basis for the specification of floral organs by APETALA3 and PISTILLATA
-
Wuest, S.E., O'Maoileidigh, D.S., Rae, L., Kwasniewska, K., Raganelli, A., Hanczaryk, K., Lohan, A.J., Loftus, B., Graciet, E., and Wellmer, F. (2012). Molecular basis for the specification of floral organs by APETALA3 and PISTILLATA. Proc. Natl. Acad. Sci. USA 109: 13452-13457.
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
, pp. 13452-13457
-
-
Wuest, S.E.1
O'Maoileidigh, D.S.2
Rae, L.3
Kwasniewska, K.4
Raganelli, A.5
Hanczaryk, K.6
Lohan, A.J.7
Loftus, B.8
Graciet, E.9
Wellmer, F.10
-
86
-
-
77949485461
-
Arabidopsis female gametophyte gene expression map reveals similarities between plant and animal gametes
-
Wuest, S.E., Vijverberg, K., Schmidt, A., Weiss, M., Gheyselinck, J., Lohr, M., Wellmer, F., Rahnenführer, J., von Mering, C., and Grossniklaus, U. (2010). Arabidopsis female gametophyte gene expression map reveals similarities between plant and animal gametes. Curr. Biol. 20: 506-512.
-
(2010)
Curr. Biol.
, vol.20
, pp. 506-512
-
-
Wuest, S.E.1
Vijverberg, K.2
Schmidt, A.3
Weiss, M.4
Gheyselinck, J.5
Lohr, M.6
Wellmer, F.7
Rahnenführer, J.8
von Mering, C.9
Grossniklaus, U.10
-
87
-
-
63849261018
-
Gene expression map of the Arabidopsis shoot apical meristem stem cell niche
-
Yadav, R.K., Girke, T., Pasala, S., Xie, M., and Reddy, G.V. (2009). Gene expression map of the Arabidopsis shoot apical meristem stem cell niche. Proc. Natl. Acad. Sci. USA 106: 4941-4946.
-
(2009)
Proc. Natl. Acad. Sci. USA
, vol.106
, pp. 4941-4946
-
-
Yadav, R.K.1
Girke, T.2
Pasala, S.3
Xie, M.4
Reddy, G.V.5
-
88
-
-
0025371984
-
The protein encoded by the Arabidopsis homeotic gene agamous resembles transcription factors
-
Yanofsky, M.F., Ma, H., Bowman, J.L., Drews, G.N., Feldmann, K.A., and Meyerowitz, E.M. (1990). The protein encoded by the Arabidopsis homeotic gene agamous resembles transcription factors. Nature 346: 35-39.
-
(1990)
Nature
, vol.346
, pp. 35-39
-
-
Yanofsky, M.F.1
Ma, H.2
Bowman, J.L.3
Drews, G.N.4
Feldmann, K.A.5
Meyerowitz, E.M.6
-
89
-
-
84979819147
-
Orchestration of the floral transition and floral development in Arabidopsis by the bifunctional transcription factor APETALA2
-
Yant, L., Mathieu, J., Dinh, T.T., Ott, F., Lanz, C., Wollmann, H., Chen, X., and Schmid, M. (2010). Orchestration of the floral transition and floral development in Arabidopsis by the bifunctional transcription factor APETALA2. Plant Cell 22: 2156-2170.
-
(2010)
Plant Cell
, vol.22
, pp. 2156-2170
-
-
Yant, L.1
Mathieu, J.2
Dinh, T.T.3
Ott, F.4
Lanz, C.5
Wollmann, H.6
Chen, X.7
Schmid, M.8
-
90
-
-
33645012635
-
Analysis of the female gametophyte transcriptome of Arabidopsis by comparative expression profiling
-
Yu, H.J., Hogan, P., and Sundaresan, V. (2005). Analysis of the female gametophyte transcriptome of Arabidopsis by comparative expression profiling. Plant Physiol. 139: 1853-1869.
-
(2005)
Plant Physiol.
, vol.139
, pp. 1853-1869
-
-
Yu, H.J.1
Hogan, P.2
Sundaresan, V.3
-
91
-
-
33947586544
-
Role of Arabidopsis AGO6 in siRNA accumulation, DNA methylation and transcriptional gene silencing
-
Zheng, X., Zhu, J., Kapoor, A., and Zhu, J.K. (2007). Role of Arabidopsis AGO6 in siRNA accumulation, DNA methylation and transcriptional gene silencing. EMBO J. 26: 1691-1701.
-
(2007)
EMBO J.
, vol.26
, pp. 1691-1701
-
-
Zheng, X.1
Zhu, J.2
Kapoor, A.3
Zhu, J.K.4
|