-
1
-
-
0029328453
-
Nitrate - nutrient and signal for plant-growth.
-
10.1105/tpc.7.7.859, 160877, 7640524
-
Crawford NM. Nitrate - nutrient and signal for plant-growth. Plant Cell 1995, 7:859-868. 10.1105/tpc.7.7.859, 160877, 7640524.
-
(1995)
Plant Cell
, vol.7
, pp. 859-868
-
-
Crawford, N.M.1
-
2
-
-
77955891592
-
Nitrate signaling: adaptation to fluctuating environments.
-
10.1016/j.pbi.2009.12.003, 20093067
-
Krouk G, Crawford NM, Coruzzi GM, Tsay YF. Nitrate signaling: adaptation to fluctuating environments. Curr Opin Plant Biol 2010, 13:266-273. 10.1016/j.pbi.2009.12.003, 20093067.
-
(2010)
Curr Opin Plant Biol
, vol.13
, pp. 266-273
-
-
Krouk, G.1
Crawford, N.M.2
Coruzzi, G.M.3
Tsay, Y.F.4
-
3
-
-
75949101552
-
A systems view of responses to nutritional cues in Arabidopsis: toward a paradigm shift for predictive network modeling.
-
10.1104/pp.109.148502, 19939945
-
Ruffel S, Krouk G, Coruzzi GM. A systems view of responses to nutritional cues in Arabidopsis: toward a paradigm shift for predictive network modeling. Plant Physiol 2010, 152:445-452. 10.1104/pp.109.148502, 19939945.
-
(2010)
Plant Physiol
, vol.152
, pp. 445-452
-
-
Ruffel, S.1
Krouk, G.2
Coruzzi, G.M.3
-
4
-
-
51649111109
-
A systems view of nitrogen nutrient and metabolite responses in Arabidopsis.
-
10.1016/j.pbi.2008.07.003, 18775665
-
Vidal EA, Gutierrez RA. A systems view of nitrogen nutrient and metabolite responses in Arabidopsis. Curr Opin Plant Biol 2008, 11:521-529. 10.1016/j.pbi.2008.07.003, 18775665.
-
(2008)
Curr Opin Plant Biol
, vol.11
, pp. 521-529
-
-
Vidal, E.A.1
Gutierrez, R.A.2
-
5
-
-
0033831570
-
Genomic analysis of a nutrient response in Arabidopsis reveals diverse expression patterns and novel metabolic and potential regulatory genes induced by nitrate.
-
10.1105/tpc.12.8.1491, 149118, 10948265
-
Wang R, Guegler K, LaBrie ST, Crawford NM. Genomic analysis of a nutrient response in Arabidopsis reveals diverse expression patterns and novel metabolic and potential regulatory genes induced by nitrate. Plant Cell 2000, 12:1491-1510. 10.1105/tpc.12.8.1491, 149118, 10948265.
-
(2000)
Plant Cell
, vol.12
, pp. 1491-1510
-
-
Wang, R.1
Guegler, K.2
LaBrie, S.T.3
Crawford, N.M.4
-
6
-
-
0037783247
-
Microarray analysis of the nitrate response in Arabidopsis roots and shoots reveals over 1,000 rapidly responding genes and new linkages to glucose, trehalose-6-phosphate, iron, and sulfate metabolism.
-
10.1104/pp.103.021253, 166997, 12805587
-
Wang R, Okamoto M, Xing X, Crawford NM. Microarray analysis of the nitrate response in Arabidopsis roots and shoots reveals over 1,000 rapidly responding genes and new linkages to glucose, trehalose-6-phosphate, iron, and sulfate metabolism. Plant Physiol 2003, 132:556-567. 10.1104/pp.103.021253, 166997, 12805587.
-
(2003)
Plant Physiol
, vol.132
, pp. 556-567
-
-
Wang, R.1
Okamoto, M.2
Xing, X.3
Crawford, N.M.4
-
7
-
-
16544369956
-
Genomic analysis of the nitrate response using a nitrate reductase-null mutant of Arabidopsis.
-
10.1104/pp.104.044610, 523318, 15333754
-
Wang R, Tischner R, Gutierrez RA, Hoffman M, Xing X, Chen M, Coruzzi G, Crawford NM. Genomic analysis of the nitrate response using a nitrate reductase-null mutant of Arabidopsis. Plant Physiol 2004, 136:2512-2522. 10.1104/pp.104.044610, 523318, 15333754.
-
(2004)
Plant Physiol
, vol.136
, pp. 2512-2522
-
-
Wang, R.1
Tischner, R.2
Gutierrez, R.A.3
Hoffman, M.4
Xing, X.5
Chen, M.6
Coruzzi, G.7
Crawford, N.M.8
-
8
-
-
16544392329
-
Genome-wide reprogramming of primary and secondary metabolism, protein synthesis, cellular growth processes, and the regulatory infrastructure of Arabidopsis in response to nitrogen.
-
10.1104/pp.104.047019, 523316, 15375205
-
Scheible WR, Morcuende R, Czechowski T, Fritz C, Osuna D, Palacios-Rojas N, Schindelasch D, Thimm O, Udvardi MK, Stitt M. Genome-wide reprogramming of primary and secondary metabolism, protein synthesis, cellular growth processes, and the regulatory infrastructure of Arabidopsis in response to nitrogen. Plant Physiol 2004, 136:2483-2499. 10.1104/pp.104.047019, 523316, 15375205.
-
(2004)
Plant Physiol
, vol.136
, pp. 2483-2499
-
-
Scheible, W.R.1
Morcuende, R.2
Czechowski, T.3
Fritz, C.4
Osuna, D.5
Palacios-Rojas, N.6
Schindelasch, D.7
Thimm, O.8
Udvardi, M.K.9
Stitt, M.10
-
9
-
-
63549132294
-
A Systems approach uncovers restrictions for signal interactions regulating genome-wide responses to nutritional cues in Arabidopsis.
-
10.1371/journal.pcbi.1000326, 2652106, 19300494
-
Krouk G, Tranchina D, Lejay L, Cruikshank AA, Shasha D, Coruzzi GM, Gutierrez RA. A Systems approach uncovers restrictions for signal interactions regulating genome-wide responses to nutritional cues in Arabidopsis. PLoS Comput Biol 2009, 5:e1000326. 10.1371/journal.pcbi.1000326, 2652106, 19300494.
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Krouk, G.1
Tranchina, D.2
Lejay, L.3
Cruikshank, A.A.4
Shasha, D.5
Coruzzi, G.M.6
Gutierrez, R.A.7
-
10
-
-
38649096571
-
Cell-specific nitrogen responses mediate developmental plasticity.
-
10.1073/pnas.0709559105, 2206617, 18180456
-
Gifford ML, Dean A, Gutierrez RA, Coruzzi GM, Birnbaum KD. Cell-specific nitrogen responses mediate developmental plasticity. Proc Natl Acad Sci USA 2008, 105:803-808. 10.1073/pnas.0709559105, 2206617, 18180456.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 803-808
-
-
Gifford, M.L.1
Dean, A.2
Gutierrez, R.A.3
Coruzzi, G.M.4
Birnbaum, K.D.5
-
11
-
-
34147133691
-
Qualitative network models and genome-wide expression data define carbon/nitrogen-responsive molecular machines in Arabidopsis.
-
10.1186/gb-2007-8-1-r7, 1839130, 17217541
-
Gutierrez RA LL, Dean A, Chiaromonte F, Shasha DE, Coruzzi GM. Qualitative network models and genome-wide expression data define carbon/nitrogen-responsive molecular machines in Arabidopsis. Genome Biol 2007, 8:R7. 10.1186/gb-2007-8-1-r7, 1839130, 17217541.
-
(2007)
Genome Biol
, vol.8
-
-
Gutierrez, R.A.L.L.1
Dean, A.2
Chiaromonte, F.3
Shasha, D.E.4
Coruzzi, G.M.5
-
12
-
-
48549097273
-
Systemic signaling of the plant nitrogen status triggers specific transcriptome responses depending on the nitrogen source in Medicago truncatula.
-
10.1104/pp.107.115667, 2287368, 18287487
-
Ruffel S, Freixes S, Balzergue S, Tillard P, Jeudy C, Martin-Magniette ML, van der Merwe MJ, Kakar K, Gouzy J, Fernie AR, Udvardi M, Salon C, Gojon A, Lepetit M. Systemic signaling of the plant nitrogen status triggers specific transcriptome responses depending on the nitrogen source in Medicago truncatula. Plant Physiol 2008, 146:2020-2035. 10.1104/pp.107.115667, 2287368, 18287487.
-
(2008)
Plant Physiol
, vol.146
, pp. 2020-2035
-
-
Ruffel, S.1
Freixes, S.2
Balzergue, S.3
Tillard, P.4
Jeudy, C.5
Martin-Magniette, M.L.6
van der Merwe, M.J.7
Kakar, K.8
Gouzy, J.9
Fernie, A.R.10
Udvardi, M.11
Salon, C.12
Gojon, A.13
Lepetit, M.14
-
13
-
-
67650080221
-
A system biology approach highlights a hormonal enhancer effect on regulation of genes in a nitrate responsive "biomodule".
-
10.1186/1752-0509-3-59, 2702358, 19500399
-
Nero D, Krouk G, Tranchina D, Coruzzi GM. A system biology approach highlights a hormonal enhancer effect on regulation of genes in a nitrate responsive "biomodule". BMC Syst Biol 2009, 3:59. 10.1186/1752-0509-3-59, 2702358, 19500399.
-
(2009)
BMC Syst Biol
, vol.3
, pp. 59
-
-
Nero, D.1
Krouk, G.2
Tranchina, D.3
Coruzzi, G.M.4
-
14
-
-
34547676098
-
Insights into the genomic nitrate response using genetics and the Sungear Software System.
-
10.1093/jxb/erm079, 17470441
-
Gutierrez RA, Gifford ML, Poultney C, Wang R, Shasha DE, Coruzzi GM, Crawford NM. Insights into the genomic nitrate response using genetics and the Sungear Software System. J Exp Bot 2007, 58:2359-2367. 10.1093/jxb/erm079, 17470441.
-
(2007)
J Exp Bot
, vol.58
, pp. 2359-2367
-
-
Gutierrez, R.A.1
Gifford, M.L.2
Poultney, C.3
Wang, R.4
Shasha, D.E.5
Coruzzi, G.M.6
Crawford, N.M.7
-
15
-
-
34248170500
-
The Arabidopsis NRT1.1 transporter participates in the signaling pathway triggering root colonization of nitrate-rich patches.
-
10.1073/pnas.0605275103, 1748200, 17148611
-
Remans T, Nacry P, Pervent M, Filleur S, Diatloff E, Mounier E, Tillard P, Forde BG, Gojon A. The Arabidopsis NRT1.1 transporter participates in the signaling pathway triggering root colonization of nitrate-rich patches. Proc Natl Acad Sci USA 2006, 103:19206-19211. 10.1073/pnas.0605275103, 1748200, 17148611.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 19206-19211
-
-
Remans, T.1
Nacry, P.2
Pervent, M.3
Filleur, S.4
Diatloff, E.5
Mounier, E.6
Tillard, P.7
Forde, B.G.8
Gojon, A.9
-
16
-
-
77955940851
-
Nitrate and auxin transport by NRT1.1 defines a mechanism for nutrient sensing in plants.
-
10.1016/j.devcel.2010.05.008, 20627075
-
Krouk G, Lacombe B, Bielach A, Perrine-Walker F, Malinska K, Mounier E, Hoyerova K, Tillard P, Leon S, Ljung K, Zazimalova E, Benkova E, Nacry P, Gojon A. Nitrate and auxin transport by NRT1.1 defines a mechanism for nutrient sensing in plants. Dev Cell 2010, 18:927-937. 10.1016/j.devcel.2010.05.008, 20627075.
-
(2010)
Dev Cell
, vol.18
, pp. 927-937
-
-
Krouk, G.1
Lacombe, B.2
Bielach, A.3
Perrine-Walker, F.4
Malinska, K.5
Mounier, E.6
Hoyerova, K.7
Tillard, P.8
Leon, S.9
Ljung, K.10
Zazimalova, E.11
Benkova, E.12
Nacry, P.13
Gojon, A.14
-
17
-
-
33751107448
-
Regulation of the high-affinity NO3- uptake system by NRT1.1-mediated NO3- demand signaling in Arabidopsis.
-
10.1104/pp.106.087510, 1630733, 16998085
-
Krouk G, Tillard P, Gojon A. Regulation of the high-affinity NO3- uptake system by NRT1.1-mediated NO3- demand signaling in Arabidopsis. Plant Physiol 2006, 142:1075-1086. 10.1104/pp.106.087510, 1630733, 16998085.
-
(2006)
Plant Physiol
, vol.142
, pp. 1075-1086
-
-
Krouk, G.1
Tillard, P.2
Gojon, A.3
-
18
-
-
4544336507
-
Transcript profiling in the chl1-5 mutant of Arabidopsis reveals a role of the nitrate transporter NRT1.1 in the regulation of another nitrate transporter, NRT2.1.
-
10.1105/tpc.104.024380, 520944, 15319483
-
Muños S, Cazettes C, Fizames C, Gaymard F, Tillard P, Lepetit M, Lejay L, Gojon A. Transcript profiling in the chl1-5 mutant of Arabidopsis reveals a role of the nitrate transporter NRT1.1 in the regulation of another nitrate transporter, NRT2.1. Plant Cell 2004, 16:2433-2447. 10.1105/tpc.104.024380, 520944, 15319483.
-
(2004)
Plant Cell
, vol.16
, pp. 2433-2447
-
-
Muños, S.1
Cazettes, C.2
Fizames, C.3
Gaymard, F.4
Tillard, P.5
Lepetit, M.6
Lejay, L.7
Gojon, A.8
-
19
-
-
70349206303
-
A genetic screen for nitrate regulatory mutants captures the nitrate transporter gene NRT1.1.
-
10.1104/pp.109.140434, 2735993, 19633234
-
Wang R, Xing X, Wang Y, Tran A, Crawford NM. A genetic screen for nitrate regulatory mutants captures the nitrate transporter gene NRT1.1. Plant Physiol 2009, 151:472-478. 10.1104/pp.109.140434, 2735993, 19633234.
-
(2009)
Plant Physiol
, vol.151
, pp. 472-478
-
-
Wang, R.1
Xing, X.2
Wang, Y.3
Tran, A.4
Crawford, N.M.5
-
20
-
-
70249134972
-
CHL1 functions as a nitrate sensor in plants.
-
10.1016/j.cell.2009.07.004, 19766570
-
Ho CH, Lin SH, Hu HC, Tsay YF. CHL1 functions as a nitrate sensor in plants. Cell 2009, 138:1184-1194. 10.1016/j.cell.2009.07.004, 19766570.
-
(2009)
Cell
, vol.138
, pp. 1184-1194
-
-
Ho, C.H.1
Lin, S.H.2
Hu, H.C.3
Tsay, Y.F.4
-
21
-
-
58349088076
-
AtCIPK8, a CBL-interacting protein kinase, regulates the low-affinity phase of the primary nitrate response.
-
10.1111/j.1365-313X.2008.03685.x, 18798873
-
Hu HC, Wang YY, Tsay YF. AtCIPK8, a CBL-interacting protein kinase, regulates the low-affinity phase of the primary nitrate response. Plant J 2009, 57:264-278. 10.1111/j.1365-313X.2008.03685.x, 18798873.
-
(2009)
Plant J
, vol.57
, pp. 264-278
-
-
Hu, H.C.1
Wang, Y.Y.2
Tsay, Y.F.3
-
22
-
-
58849097591
-
The nodule inception-like protein 7 modulates nitrate sensing and metabolism in Arabidopsis.
-
10.1111/j.1365-313X.2008.03695.x, 18826430
-
Castaings L, Camargo A, Pocholle D, Gaudon V, Texier Y, Boutet-Mercey S, Taconnat L, Renou JP, Daniel-Vedele F, Fernandez E, Meyer C, Krapp A. The nodule inception-like protein 7 modulates nitrate sensing and metabolism in Arabidopsis. Plant J 2009, 57:426-435. 10.1111/j.1365-313X.2008.03695.x, 18826430.
-
(2009)
Plant J
, vol.57
, pp. 426-435
-
-
Castaings, L.1
Camargo, A.2
Pocholle, D.3
Gaudon, V.4
Texier, Y.5
Boutet-Mercey, S.6
Taconnat, L.7
Renou, J.P.8
Daniel-Vedele, F.9
Fernandez, E.10
Meyer, C.11
Krapp, A.12
-
23
-
-
73249138781
-
Members of the LBD family of transcription factors repress anthocyanin synthesis and affect additional nitrogen responses in Arabidopsis.
-
10.1105/tpc.109.067041, 2798321, 19933203
-
Rubin G, Tohge T, Matsuda F, Saito K, Scheible WR. Members of the LBD family of transcription factors repress anthocyanin synthesis and affect additional nitrogen responses in Arabidopsis. Plant Cell 2009, 21:3567-3584. 10.1105/tpc.109.067041, 2798321, 19933203.
-
(2009)
Plant Cell
, vol.21
, pp. 3567-3584
-
-
Rubin, G.1
Tohge, T.2
Matsuda, F.3
Saito, K.4
Scheible, W.R.5
-
24
-
-
0032536001
-
An Arabidopsis MADS box gene that controls nutrient-induced changes in root architecture.
-
10.1126/science.279.5349.407, 9430595
-
Zhang H, Forde BG. An Arabidopsis MADS box gene that controls nutrient-induced changes in root architecture. Science 1998, 279:407-409. 10.1126/science.279.5349.407, 9430595.
-
(1998)
Science
, vol.279
, pp. 407-409
-
-
Zhang, H.1
Forde, B.G.2
-
26
-
-
34247235591
-
The effect of Glc6P uptake and its subsequent oxidation within pea root plastids on nitrite reduction and glutamate synthesis.
-
10.1093/jxb/erl269, 17220512
-
Bowsher CG, Lacey AE, Hanke GT, Clarkson DT, Saker LR, Stulen I, Emes MJ. The effect of Glc6P uptake and its subsequent oxidation within pea root plastids on nitrite reduction and glutamate synthesis. J Exp Bot 2007, 58:1109-1118. 10.1093/jxb/erl269, 17220512.
-
(2007)
J Exp Bot
, vol.58
, pp. 1109-1118
-
-
Bowsher, C.G.1
Lacey, A.E.2
Hanke, G.T.3
Clarkson, D.T.4
Saker, L.R.5
Stulen, I.6
Emes, M.J.7
-
27
-
-
48549089667
-
Oxidative pentose phosphate pathway-dependent sugar sensing as a mechanism for regulation of root ion transporters by photosynthesis.
-
10.1104/pp.107.114710, 2287369, 18305209
-
Lejay L, Wirth J, Pervent M, Cross JM, Tillard P, Gojon A. Oxidative pentose phosphate pathway-dependent sugar sensing as a mechanism for regulation of root ion transporters by photosynthesis. Plant Physiol 2008, 146:2036-2053. 10.1104/pp.107.114710, 2287369, 18305209.
-
(2008)
Plant Physiol
, vol.146
, pp. 2036-2053
-
-
Lejay, L.1
Wirth, J.2
Pervent, M.3
Cross, J.M.4
Tillard, P.5
Gojon, A.6
-
28
-
-
36348952053
-
Genome-wide analysis of Arabidopsis responsive transcriptome to nitrogen limitation and its regulation by the ubiquitin ligase gene NLA.
-
10.1007/s11103-007-9241-0, 17885809
-
Peng M, Bi YM, Zhu T, Rothstein SJ. Genome-wide analysis of Arabidopsis responsive transcriptome to nitrogen limitation and its regulation by the ubiquitin ligase gene NLA. Plant Mol Biol 2007, 65:775-797. 10.1007/s11103-007-9241-0, 17885809.
-
(2007)
Plant Mol Biol
, vol.65
, pp. 775-797
-
-
Peng, M.1
Bi, Y.M.2
Zhu, T.3
Rothstein, S.J.4
-
29
-
-
33746777825
-
Different plant hormones regulate similar processes through largely nonoverlapping transcriptional responses.
-
10.1016/j.cell.2006.05.050, 16901781
-
Nemhauser JL, Hong F, Chory J. Different plant hormones regulate similar processes through largely nonoverlapping transcriptional responses. Cell 2006, 126:467-475. 10.1016/j.cell.2006.05.050, 16901781.
-
(2006)
Cell
, vol.126
, pp. 467-475
-
-
Nemhauser, J.L.1
Hong, F.2
Chory, J.3
-
30
-
-
60449113951
-
Plant hormones and nutrient signaling.
-
10.1007/s11103-008-9380-y, 18688730
-
Rubio V, Bustos R, Irigoyen ML, Cardona-Lopez X, Rojas-Triana M, Paz-Ares J. Plant hormones and nutrient signaling. Plant Mol Biol 2009, 69:361-373. 10.1007/s11103-008-9380-y, 18688730.
-
(2009)
Plant Mol Biol
, vol.69
, pp. 361-373
-
-
Rubio, V.1
Bustos, R.2
Irigoyen, M.L.3
Cardona-Lopez, X.4
Rojas-Triana, M.5
Paz-Ares, J.6
-
31
-
-
78951494457
-
Reverse engineering of gene regulatory networks.
-
Cambridge MA: MIT Press, Lawrence N, Girolami M, Rattray M, Sanguinetti G
-
Jaeger J, Monk N. Reverse engineering of gene regulatory networks. Learning and Inference in Computational Systems Biology 2010, Cambridge MA: MIT Press, Lawrence N, Girolami M, Rattray M, Sanguinetti G.
-
(2010)
Learning and Inference in Computational Systems Biology
-
-
Jaeger, J.1
Monk, N.2
-
32
-
-
37349099750
-
A predictive model for transcriptional control of physiology in a free living cell.
-
10.1016/j.cell.2007.10.053, 18160043
-
Bonneau R, Facciotti MT, Reiss DJ, Schmid AK, Pan M, Kaur A, Thorsson V, Shannon P, Johnson MH, Bare JC, Longabaugh W, Vuthoori M, Whitehead K, Madar A, Suzuki L, Mori T, Chang DE, Diruggiero J, Johnson CH, Hood L, Baliga NS. A predictive model for transcriptional control of physiology in a free living cell. Cell 2007, 131:1354-1365. 10.1016/j.cell.2007.10.053, 18160043.
-
(2007)
Cell
, vol.131
, pp. 1354-1365
-
-
Bonneau, R.1
Facciotti, M.T.2
Reiss, D.J.3
Schmid, A.K.4
Pan, M.5
Kaur, A.6
Thorsson, V.7
Shannon, P.8
Johnson, M.H.9
Bare, J.C.10
Longabaugh, W.11
Vuthoori, M.12
Whitehead, K.13
Madar, A.14
Suzuki, L.15
Mori, T.16
Chang, D.E.17
Diruggiero, J.18
Johnson, C.H.19
Hood, L.20
Baliga, N.S.21
more..
-
33
-
-
33747813561
-
The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo.
-
10.1186/gb-2006-7-5-r36, 1779511, 16686963
-
Bonneau R, Reiss DJ, Shannon P, Facciotti M, Hood L, Baliga NS, Thorsson V. The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo. Genome Biol 2006, 7:R36. 10.1186/gb-2006-7-5-r36, 1779511, 16686963.
-
(2006)
Genome Biol
, vol.7
-
-
Bonneau, R.1
Reiss, D.J.2
Shannon, P.3
Facciotti, M.4
Hood, L.5
Baliga, N.S.6
Thorsson, V.7
-
34
-
-
33750016109
-
Inferring gene regulatory networks from multiple microarray datasets.
-
10.1093/bioinformatics/btl396, 16864593
-
Wang Y, Joshi T, Zhang XS, Xu D, Chen L. Inferring gene regulatory networks from multiple microarray datasets. Bioinformatics 2006, 22:2413-2420. 10.1093/bioinformatics/btl396, 16864593.
-
(2006)
Bioinformatics
, vol.22
, pp. 2413-2420
-
-
Wang, Y.1
Joshi, T.2
Zhang, X.S.3
Xu, D.4
Chen, L.5
-
35
-
-
66749164082
-
Recursive regularization for inferring gene networks from time-course gene expression profiles.
-
10.1186/1752-0509-3-41, 2686685, 19386091
-
Shimamura T, Imoto S, Yamaguchi R, Fujita A, Nagasaki M, Miyano S. Recursive regularization for inferring gene networks from time-course gene expression profiles. BMC Syst Biol 2009, 3:41. 10.1186/1752-0509-3-41, 2686685, 19386091.
-
(2009)
BMC Syst Biol
, vol.3
, pp. 41
-
-
Shimamura, T.1
Imoto, S.2
Yamaguchi, R.3
Fujita, A.4
Nagasaki, M.5
Miyano, S.6
-
37
-
-
13844253637
-
A Bayesian approach to reconstructing genetic regulatory networks with hidden factors.
-
10.1093/bioinformatics/bti014, 15353451
-
Beal M, Falciani F, Ghahramani Z, Rangel C, Wild D. A Bayesian approach to reconstructing genetic regulatory networks with hidden factors. Bioinformatics 2005, 21:349-356. 10.1093/bioinformatics/bti014, 15353451.
-
(2005)
Bioinformatics
, vol.21
, pp. 349-356
-
-
Beal, M.1
Falciani, F.2
Ghahramani, Z.3
Rangel, C.4
Wild, D.5
-
38
-
-
78951494606
-
Inferring transcriptional networks using prior biological knowledge and constrained state-space models.
-
Cambridge: MIT Press, Lawrence ND, Girolami M, Rattray M, Sanguinetti G
-
Angus J, Beal M, Li J, Rangel C, Wild D. Inferring transcriptional networks using prior biological knowledge and constrained state-space models. Learning and Inference in Computational Systems Biology 2010, 117-152. Cambridge: MIT Press, Lawrence ND, Girolami M, Rattray M, Sanguinetti G.
-
(2010)
Learning and Inference in Computational Systems Biology
, pp. 117-152
-
-
Angus, J.1
Beal, M.2
Li, J.3
Rangel, C.4
Wild, D.5
-
39
-
-
77950422238
-
An integrated machine learning approach for predicting DosR-regulated genes in Mycobacterium tuberculosis.
-
10.1186/1752-0509-4-37, 2867773, 20356371
-
Zhang Y, Hatch KA, Bacon J, Wernisch L. An integrated machine learning approach for predicting DosR-regulated genes in Mycobacterium tuberculosis. BMC Syst Biol 2010, 4:37. 10.1186/1752-0509-4-37, 2867773, 20356371.
-
(2010)
BMC Syst Biol
, vol.4
, pp. 37
-
-
Zhang, Y.1
Hatch, K.A.2
Bacon, J.3
Wernisch, L.4
-
40
-
-
0034791625
-
Modeling genetic regulatory dynamic in neural development.
-
10.1089/106652701752236223, 11571076
-
Wahde M, Hertz J. Modeling genetic regulatory dynamic in neural development. J Comput Biol 2001, 8:429-442. 10.1089/106652701752236223, 11571076.
-
(2001)
J Comput Biol
, vol.8
, pp. 429-442
-
-
Wahde, M.1
Hertz, J.2
-
41
-
-
66349115724
-
Grouped graphical Granger modeling for gene expression regulatory networks discovery.
-
10.1093/bioinformatics/btp199, 2687953, 19477976
-
Lozano AC, Abe N, Liu Y, Rosset S. Grouped graphical Granger modeling for gene expression regulatory networks discovery. Bioinformatics 2009, 25:i110-118. 10.1093/bioinformatics/btp199, 2687953, 19477976.
-
(2009)
Bioinformatics
, vol.25
-
-
Lozano, A.C.1
Abe, N.2
Liu, Y.3
Rosset, S.4
-
42
-
-
3242708140
-
Least angle regression.
-
Efron B, Hastie T, Jonnstone I, Tibshirani R. Least angle regression. Ann Stat 2004, 32:407-499.
-
(2004)
Ann Stat
, vol.32
, pp. 407-499
-
-
Efron, B.1
Hastie, T.2
Jonnstone, I.3
Tibshirani, R.4
-
43
-
-
16244401458
-
Regularization and variable selection via the elastic net.
-
Zhu H, Hastie T. Regularization and variable selection via the elastic net. J R Stat Soc 2005, 67:301-320.
-
(2005)
J R Stat Soc
, vol.67
, pp. 301-320
-
-
Zhu, H.1
Hastie, T.2
-
44
-
-
0001287271
-
Regression shrinkage and selection via the lasso.
-
Tibshirani R. Regression shrinkage and selection via the lasso. J R Stat Soc 2006, 58:267-288.
-
(2006)
J R Stat Soc
, vol.58
, pp. 267-288
-
-
Tibshirani, R.1
-
45
-
-
42149177744
-
The microRNA regulated SBP-box genes SPL9 and SPL15 control shoot maturation in Arabidopsis.
-
10.1007/s11103-008-9310-z, 2295252, 18278578
-
Schwarz S, Grande AV, Bujdoso N, Saedler H, Huijser P. The microRNA regulated SBP-box genes SPL9 and SPL15 control shoot maturation in Arabidopsis. Plant Mol Biol 2008, 67:183-195. 10.1007/s11103-008-9310-z, 2295252, 18278578.
-
(2008)
Plant Mol Biol
, vol.67
, pp. 183-195
-
-
Schwarz, S.1
Grande, A.V.2
Bujdoso, N.3
Saedler, H.4
Huijser, P.5
-
46
-
-
68749095252
-
MiR156-regulated SPL transcription factors define an endogenous flowering pathway in Arabidopsis thaliana.
-
10.1016/j.cell.2009.06.014, 19703399
-
Wang JW, Czech B, Weigel D. miR156-regulated SPL transcription factors define an endogenous flowering pathway in Arabidopsis thaliana. Cell 2009, 138:738-749. 10.1016/j.cell.2009.06.014, 19703399.
-
(2009)
Cell
, vol.138
, pp. 738-749
-
-
Wang, J.W.1
Czech, B.2
Weigel, D.3
-
47
-
-
68749100821
-
The sequential action of miR156 and miR172 regulates developmental timing in Arabidopsis.
-
10.1016/j.cell.2009.06.031, 2732587, 19703400
-
Wu G, Park MY, Conway SR, Wang JW, Weigel D, Poethig RS. The sequential action of miR156 and miR172 regulates developmental timing in Arabidopsis. Cell 2009, 138:750-759. 10.1016/j.cell.2009.06.031, 2732587, 19703400.
-
(2009)
Cell
, vol.138
, pp. 750-759
-
-
Wu, G.1
Park, M.Y.2
Conway, S.R.3
Wang, J.W.4
Weigel, D.5
Poethig, R.S.6
-
48
-
-
54949093292
-
Dual effects of miR156-targeted SPL genes and CYP78A5/KLUH on plastochron length and organ size in Arabidopsis thaliana.
-
10.1105/tpc.108.058180, 2438454, 18492871
-
Wang JW, Schwab R, Czech B, Mica E, Weigel D. Dual effects of miR156-targeted SPL genes and CYP78A5/KLUH on plastochron length and organ size in Arabidopsis thaliana. Plant Cell 2008, 20:1231-1243. 10.1105/tpc.108.058180, 2438454, 18492871.
-
(2008)
Plant Cell
, vol.20
, pp. 1231-1243
-
-
Wang, J.W.1
Schwab, R.2
Czech, B.3
Mica, E.4
Weigel, D.5
-
49
-
-
67650156804
-
Identification of nutrient-responsive Arabidopsis and rapeseed microRNAs by comprehensive real-time polymerase chain reaction profiling and small RNA sequencing.
-
10.1104/pp.109.139139, 2705054, 19465578
-
Pant BD, Musialak-Lange M, Nuc P, May P, Buhtz A, Kehr J, Walther D, Scheible WR. Identification of nutrient-responsive Arabidopsis and rapeseed microRNAs by comprehensive real-time polymerase chain reaction profiling and small RNA sequencing. Plant Physiol 2009, 150:1541-1555. 10.1104/pp.109.139139, 2705054, 19465578.
-
(2009)
Plant Physiol
, vol.150
, pp. 1541-1555
-
-
Pant, B.D.1
Musialak-Lange, M.2
Nuc, P.3
May, P.4
Buhtz, A.5
Kehr, J.6
Walther, D.7
Scheible, W.R.8
-
50
-
-
71049136041
-
Uncovering small RNA-mediated responses to phosphate-deficiency in Arabidopsis by deep sequencing.
-
10.1104/pp.109.147280, 2785986, 19854858
-
Hsieh LC, Lin SI, Shih AC, Chen JW, Lin WY, Tseng CY, Li WH, Chiou TJ. Uncovering small RNA-mediated responses to phosphate-deficiency in Arabidopsis by deep sequencing. Plant Physiol 2009, 151:2120-2132. 10.1104/pp.109.147280, 2785986, 19854858.
-
(2009)
Plant Physiol
, vol.151
, pp. 2120-2132
-
-
Hsieh, L.C.1
Lin, S.I.2
Shih, A.C.3
Chen, J.W.4
Lin, W.Y.5
Tseng, C.Y.6
Li, W.H.7
Chiou, T.J.8
-
51
-
-
84976630546
-
R project website.
-
R project website. , http://www.r-project.org/
-
-
-
-
52
-
-
80052497665
-
MeV software.
-
MeV software. , http://www.tm4.org/mev.html
-
-
-
-
53
-
-
0035024021
-
Validating clustering for gene expression data.
-
10.1093/bioinformatics/17.4.309, 11301299
-
Yeung KY, Haynor DR, Ruzzo WL. Validating clustering for gene expression data. Bioinformatics 2001, 17:309-318. 10.1093/bioinformatics/17.4.309, 11301299.
-
(2001)
Bioinformatics
, vol.17
, pp. 309-318
-
-
Yeung, K.Y.1
Haynor, D.R.2
Ruzzo, W.L.3
-
54
-
-
85082788784
-
Source code for SSM.
-
Source code for SSM. , http://cs.nyu.edu/~mirowski/Publications_en.html
-
-
-
|