-
1
-
-
0030848624
-
Atest case of correlation metric construction of a reaction Pathway from Measurements
-
Arkin,A. et al. (1997)Atest case of correlation metric construction of a reaction Pathway from Measurements. Science, 277, 1275-1279.
-
(1997)
Science
, vol.277
, pp. 1275-1279
-
-
Arkin, A.1
-
2
-
-
59149103774
-
Coordinated concentration changes of transcripts and metabolites in Saccharomyces cerevisiae
-
Bradley,P.H. et al. (2009) Coordinated concentration changes of transcripts and metabolites in Saccharomyces cerevisiae. PLoS Comput. Biol., 5, e1000270.
-
(2009)
PLoS Comput. Biol.
, vol.5
-
-
Bradley, P.H.1
-
3
-
-
75449092046
-
AtPIN: Arabidopsis thaliana protein interaction network
-
Brandão,M.M. et al. (2009) AtPIN: Arabidopsis thaliana protein interaction network. BMC Bioinformatics, 10, 454.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 454
-
-
Brandão, M.M.1
-
4
-
-
34249335649
-
OPLS discriminant analysis: combining the strengths of PLSDA and SIMCA classification
-
Bylesjö,M. et al. (2006) OPLS discriminant analysis: combining the strengths of PLSDA and SIMCA classification. J. Chemomet., 20, 341-351.
-
(2006)
J. Chemomet.
, vol.20
, pp. 341-351
-
-
Bylesjö, M.1
-
5
-
-
36949021555
-
Data integration in plant biology: the O2PLS method for combined modeling of transcript and metabolite data
-
Bylesjö,M. et al. (2007) Data integration in plant biology: the O2PLS method for combined modeling of transcript and metabolite data. Plant J., 52, 1181-1191.
-
(2007)
Plant J
, vol.52
, pp. 1181-1191
-
-
Bylesjö, M.1
-
6
-
-
33845665396
-
Integrated analysis of metabolite and transcript levels reveals the metabolic shifts that underlie tomato fruit development and highlight regulatory aspects of metabolic network behavior
-
Carrari,F. et al. (2006) Integrated analysis of metabolite and transcript levels reveals the metabolic shifts that underlie tomato fruit development and highlight regulatory aspects of metabolic network behavior. Plant Physiol., 142, 1380-1396.
-
(2006)
Plant Physiol.
, vol.142
, pp. 1380-1396
-
-
Carrari, F.1
-
7
-
-
59649119722
-
Timing of gene expression responses to environmental changes
-
Chechik,G. and Koller,D. (2009) Timing of gene expression responses to environmental changes. J. Comput. Biol., 16, 279-290.
-
(2009)
J. Comput. Biol.
, vol.16
, pp. 279-290
-
-
Chechik, G.1
Koller, D.2
-
8
-
-
19544375816
-
The graphical query language: a tool for analysis of gene expression time-courses
-
Costa,I.G. et al. (2005) The graphical query language: a tool for analysis of gene expression time-courses. Bioinformatics, 21, 2544-2545.
-
(2005)
Bioinformatics
, vol.21
, pp. 2544-2545
-
-
Costa, I.G.1
-
9
-
-
66349133214
-
Constrained mixture estimation for analysis and robust classification of clinical time series
-
Costa,I.G. et al. (2009) Constrained mixture estimation for analysis and robust classification of clinical time series. Bioinformatics, 25, i6-i14.
-
(2009)
Bioinformatics
, vol.25
-
-
Costa, I.G.1
-
10
-
-
58149263701
-
Time-series integrated 'omic' analyses to elucidate shortterm stress-induced responses in plant liquid cultures
-
Dutta,B. et al. (2009) Time-series integrated 'omic' analyses to elucidate shortterm stress-induced responses in plant liquid cultures. Biotechnol. Bioeng., 102, 264-279.
-
(2009)
Biotechnol. Bioeng.
, vol.102
, pp. 264-279
-
-
Dutta, B.1
-
11
-
-
33749120080
-
Integration of metabolite with transcript and enzyme activity profiling during diurnal cycles in Arabidopsis rosettes
-
Gibon,Y. et al. (2006) Integration of metabolite with transcript and enzyme activity profiling during diurnal cycles in Arabidopsis rosettes. Genome Biol., 7, R76.
-
(2006)
Genome Biol.
, vol.7
-
-
Gibon, Y.1
-
12
-
-
79953295361
-
Classifying short gene expression time-courses with bayesian estimation of piecewise constant functions
-
Hafemeister,C. et al. (2011) Classifying short gene expression time-courses with bayesian estimation of piecewise constant functions. Bioinformatics, 27, 946-952.
-
(2011)
Bioinformatics
, vol.27
, pp. 946-952
-
-
Hafemeister, C.1
-
13
-
-
0034671791
-
Orchestrated transcription of key pathways in Arabidopsis by the circadian clock
-
Harmer,S.L. et al. (2000) Orchestrated transcription of key pathways in Arabidopsis by the circadian clock. Science, 290, 2110-2113.
-
(2000)
Science
, vol.290
, pp. 2110-2113
-
-
Harmer, S.L.1
-
14
-
-
0344177200
-
Global expression profiling of sulfur-starved Arabidopsis by DNAmacroarray reveals the role of O-acetyl-l-serine as a general regulator of gene expression in response to sulfur nutrition
-
Hirai,M.Y. et al. (2003) Global expression profiling of sulfur-starved Arabidopsis by DNAmacroarray reveals the role of O-acetyl-l-serine as a general regulator of gene expression in response to sulfur nutrition. Plant J., 33, 651-663.
-
(2003)
Plant J.
, vol.33
, pp. 651-663
-
-
Hirai, M.Y.1
-
15
-
-
3042750616
-
Integration of transcriptomics and metabolomics for understanding of global responses to nutritional stresses in Arabidopsis thaliana
-
Hirai,M.Y. et al. (2004) Integration of transcriptomics and metabolomics for understanding of global responses to nutritional stresses in Arabidopsis thaliana. Proc. Natl Acad. Sci. USA, 101, 10205-10210.
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 10205-10210
-
-
Hirai, M.Y.1
-
16
-
-
21844472259
-
Elucidation of gene-to-gene and metabolite-to-gene networks in arabidopsis by integration of metabolomics and transcriptomics
-
Hirai,M.Y. et al. (2005) Elucidation of gene-to-gene and metabolite-to-gene networks in arabidopsis by integration of metabolomics and transcriptomics. J. Biol. Chem., 280, 25590-25595.
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 25590-25595
-
-
Hirai, M.Y.1
-
17
-
-
78650596454
-
Individual vs. combinatorial effect of elevated CO2 conditions and salinity stress on Arabidopsis thaliana liquid cultures: Comparing the early molecular response using time-series transcriptomic and metabolomic analyses
-
Kanani,H. et al. (2010) Individual vs. combinatorial effect of elevated CO2 conditions and salinity stress on Arabidopsis thaliana liquid cultures: Comparing the early molecular response using time-series transcriptomic and metabolomic analyses. BMC Syst. Biol., 4, 177.
-
(2010)
BMC Syst. Biol.
, vol.4
, pp. 177
-
-
Kanani, H.1
-
18
-
-
16644398573
-
Exploring the temperature-stress metabolome of Arabidopsis
-
Kaplan,F. et al. (2004) Exploring the temperature-stress metabolome of Arabidopsis. Plant Physiol., 136, 4159-4168.
-
(2004)
Plant Physiol
, vol.136
, pp. 4159-4168
-
-
Kaplan, F.1
-
19
-
-
34250177304
-
Transcript and metabolite profiling during cold acclimation of Arabidopsis reveals an intricate relationship of cold-regulated gene expression with modifications in metabolite content
-
Kaplan,F. et al. (2007) Transcript and metabolite profiling during cold acclimation of Arabidopsis reveals an intricate relationship of cold-regulated gene expression with modifications in metabolite content. Plant J., 50, 967-981.
-
(2007)
Plant J.
, vol.50
, pp. 967-981
-
-
Kaplan, F.1
-
20
-
-
33646200155
-
Expression dynamics of a cellular metabolic network
-
2005.0016
-
Kharchenko,P. et al. (2005) Expression dynamics of a cellular metabolic network. Mol. Syst. Biol., 1, 2005.0016.
-
(2005)
Mol. Syst. Biol.
, vol.1
-
-
Kharchenko, P.1
-
21
-
-
33846048300
-
When transcriptome meets metabolome: fast cellular responses of yeast to sudden relief of glucose limitation
-
Kresnowati,M.T.A.P. et al. (2006)When transcriptome meets metabolome: fast cellular responses of yeast to sudden relief of glucose limitation. Mol. Syst. Biol., 2, 49.
-
(2006)
Mol. Syst. Biol.
, vol.2
, pp. 49
-
-
Kresnowati, M.T.A.P.1
-
22
-
-
33749052511
-
Rheostat control of gene expression by metabolites
-
Ladurner,A.G. (2006) Rheostat control of gene expression by metabolites. Mol. Cell, 24, 1-11.
-
(2006)
Mol. Cell
, vol.24
, pp. 1-11
-
-
Ladurner, A.G.1
-
23
-
-
0036728244
-
Oxidative stress, antioxidants and stress tolerance
-
Mittler,R. (2002) Oxidative stress, antioxidants and stress tolerance. Trends Plant Sci., 7, 405-410.
-
(2002)
Trends Plant Sci.
, vol.7
, pp. 405-410
-
-
Mittler, R.1
-
24
-
-
33846061087
-
ATTED-II: a database of coexpressed genes and cis elements for identifying co-regulated gene groups in Arabidopsis
-
Obayashi,T. et al. (2007) ATTED-II: a database of coexpressed genes and cis elements for identifying co-regulated gene groups in Arabidopsis. Nucleic Acids Res., 35, D863-D869.
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Obayashi, T.1
-
25
-
-
12244259764
-
Regulation of sulfur-responsive gene expression by exogenously applied cytokinins in Arabidopsis thaliana
-
Ohkama,N. et al. (2002) Regulation of sulfur-responsive gene expression by exogenously applied cytokinins in Arabidopsis thaliana. Plant Cell Physiol., 43, 1493-1501.
-
(2002)
Plant Cell Physiol.
, vol.43
, pp. 1493-1501
-
-
Ohkama, N.1
-
26
-
-
73249123281
-
Efficient operation of NAD(P)H dehydrogenase requires supercomplex formation with photosystem I via minor LHCI in Arabidopsis
-
Peng,L. et al. (2009) Efficient operation of NAD(P)H dehydrogenase requires supercomplex formation with photosystem I via minor LHCI in Arabidopsis. Plant Cell, 21, 3623-3640.
-
(2009)
Plant Cell
, vol.21
, pp. 3623-3640
-
-
Peng, L.1
-
27
-
-
33745323053
-
Integrative investigation of metabolic and transcriptomic data
-
Pir,P. et al. (2006) Integrative investigation of metabolic and transcriptomic data. BMC Bioinformatics, 7, 203.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 203
-
-
Pir, P.1
-
28
-
-
0024610919
-
A tutorial on Hidden Markov models and selected applications in speech recognition
-
Rabiner,L.R. (1989) A tutorial on Hidden Markov models and selected applications in speech recognition. Proc. IEEE, 77, 257-285.
-
(1989)
Proc. IEEE
, vol.77
, pp. 257-285
-
-
Rabiner, L.R.1
-
29
-
-
38149065301
-
Transcription factor target prediction using multiple short expression time series from Arabidopsis thaliana
-
Redestig,H. et al. (2007) Transcription factor target prediction using multiple short expression time series from Arabidopsis thaliana. BMC Bioinformatics, 8, 454.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 454
-
-
Redestig, H.1
-
30
-
-
77951602363
-
Consolidating metabolite identifiers to enable contextual and multi-platform metabolomics
-
Redestig,H. et al. (2010) Consolidating metabolite identifiers to enable contextual and multi-platform metabolomics. BMC Bioinformatics, 11, 214.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 214
-
-
Redestig, H.1
-
31
-
-
37849020436
-
Decoding genes with coexpression networks and metabolomics -'majority report by precogs'
-
Saito,K. et al. (2008) Decoding genes with coexpression networks and metabolomics -'majority report by precogs'. Trends Plant Sci., 13, 36-43.
-
(2008)
Trends Plant Sci.
, vol.13
, pp. 36-43
-
-
Saito, K.1
-
32
-
-
4944252468
-
Using Hidden Markov Models to analyze gene expression time course data
-
Schliep,A. et al. (2003) Using Hidden Markov Models to analyze gene expression time course data. Bioinformatics, 19 (Suppl. 1), i255-i263.
-
(2003)
Bioinformatics
, vol.19
, Issue.SUPPL. 1
-
-
Schliep, A.1
-
34
-
-
0038281453
-
Observing and interpreting correlations in metabolomic networks
-
Steuer,R. et al. (2003) Observing and interpreting correlations in metabolomic networks. Bioinformatics, 19, 1019-1026.
-
(2003)
Bioinformatics
, vol.19
, pp. 1019-1026
-
-
Steuer, R.1
-
35
-
-
79551567038
-
Dynamics of time-lagged gene-to-metabolite networks of Escherichia coli elucidated by integrative omics approach
-
Takahashi,H. et al. (2011) Dynamics of time-lagged gene-to-metabolite networks of Escherichia coli elucidated by integrative omics approach. OMICS, 15, 15-23.
-
(2011)
OMICS
, vol.15
, pp. 15-23
-
-
Takahashi, H.1
-
36
-
-
0242607632
-
Parallel analysis of transcript and metabolic profiles: a new approach in systems biology
-
Urbanczyk-Wochniak,E. et al. (2003) Parallel analysis of transcript and metabolic profiles: a new approach in systems biology. EMBO Rep., 4, 989-993.
-
(2003)
EMBO Rep.
, vol.4
, pp. 989-993
-
-
Urbanczyk-Wochniak, E.1
-
37
-
-
77954203152
-
Metabolic pathway relationships revealed by an integrative analysis of the transcriptional and metabolic temperature stress-response dynamics in yeast
-
Walther,D. et al. (2010) Metabolic pathway relationships revealed by an integrative analysis of the transcriptional and metabolic temperature stress-response dynamics in yeast. OMICS, 14, 261-274.
-
(2010)
OMICS
, vol.14
, pp. 261-274
-
-
Walther, D.1
|