(2006). A discussion of statistical methods for design and analysis of microarray experiments for plant scientists. Plant Cell
(2002). A fortunate choice: the history of Arabidopsis as a model plant. Nat Rev Genet
(2005). A gene expression map of Arabidopsis thaliana development. Nat Genet
(2001). A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. Mol Biol Evol
(2005). A microarray analysis of the rice transcriptome and its comparison to Arabidopsis. Genome Res
(2009). A transcriptome atlas of rice cell types uncovers cellular, functional and developmental hierarchies. Nat Genet
(2001). AD: A Bayesian framework for the analysis of microarray expression data: regularized t-test and statistical inferences of gene changes. Bioinformatics
(2008). AH: A bioinformatic and transcriptomic approach to identifying positional Narsai et al.
(2008). AH: Rice-arsenate interactions in hydroponics: whole genome transcriptional analysis.
(2009). al: Physiological and transcriptome analysis of iron and phosphorus interaction in rice seedlings. Plant Physiol
(2000). Arabidopsis ethylene-responsive element binding factors act as transcriptional Narsai et al.
(2010). Breeding technologies to increase crop production in a changing world. Science
(2009). Buell CR: Splendor in the grasses. Plant Physiol
(2007). Ca-Responsive cis-Elements in Plants. Plant Signal Behav
(2009). Chalhoub B: Sixty million years in evolution of soft grain trait in grasses: emergence of the softness locus in the common ancestor of Pooideae and Ehrhartoideae, after their divergence from Panicoideae. Mol Biol Evol
(2007). Close TJ: Genomewide transcriptional analysis of salinity stressed japonica and indica rice genotypes during panicle initiation stage. Plant Mol Biol
(2001). Comparative genomics between rice and Arabidopsis shows scant collinearity in gene order. Genome Res
(2008). Conserved and diverse mechanisms in root development. Curr Opin Plant Biol
(2008). Convergence and parallelism reconsidered: what have we learned about the genetics of adaptation. Trends in Ecology and Evolution
(2010). DA: Comparative genomics of flowering time pathways using Brachypodium distachyon as a model for the temperate grasses. PLoS One
(2009). Defining core metabolic and transcriptomic responses to oxygen availability in rice embryos and young seedlings. Plant Physiol
(2010). Defining reference genes in Oryza sativa using organ, development, biotic and abiotic transcriptome datasets.
(2002). Delseny M: Regulation of Arabidopsis thaliana Em genes: role of ABI5.
(2008). Deng XW: Rice 2020: A Call For An International Coordinated Effort In Rice Functional Genomics. Molecular Plant
(2010). DL: Genome-wide classification and evolutionary analysis of the bHLH family of transcription factors in Arabidopsis, poplar, rice, moss, and algae. Plant Physiol
(2010). DP: A Conserved Mechanism of Bract Suppression in the Grass Family. Plant Cell
(2006). DRTF: a database of rice transcription factors. Bioinformatics
(2009). et al: Comparative genome analysis of lignin biosynthesis gene families across the plant kingdom.
(2005). et al: Comparative transcriptional profiling of two contrasting rice genotypes under salinity stress during the vegetative growth stage. Plant Physiol
(2006). et al: PageMan: an interactive ontology tool to generate, display, and annotate overview graphs for profiling experiments.
(2009). et al: RiceArrayNet: A Database for Correlating Gene Expression from Transcriptome Profiling, and Its Application to the Analysis of Coexpressed Genes in Rice. Plant Physiol
(2008). et al: Various spatiotemporal expression profiles of anther-expressed genes in rice. Plant Cell Physiol
(2009). Evolution of F-box genes in plants: different modes of sequence divergence and their relationships with functional diversification.
(2010). Evolutionary history and stress regulation of the lectin superfamily in higher plants.
(2008). Fan LM: Nitric oxide signaling in plant responses to abiotic stresses.
(2010). FJ: Comparative systems biology: from bacteria to man. Wiley Interdisciplinary Reviews: Systems Biology and Medicine
(2010). Food security: the challenge of feeding 9 billion people. Science
(2010). From genomics to crop breeding.
(2009). Gene and genome duplications: the impact of dosage-sensitivity on the fate of nuclear genes. Chromosome Res
(2003). Gene expression phenotypes of Arabidopsis associated with sensitivity to low temperatures. Plant Physiol
(2007). Genome-wide analysis of mRNA decay rates and their determinants in Arabidopsis thaliana. Plant Cell
(2007). Genome-wide gene expression profiling reveals conserved and novel molecular functions of the stigma in rice. Plant Physiol
(2009). Genome-wide survey and expression profiling of heat shock proteins and heat shock factors revealed overlapped and stress specific response under abiotic stresses in rice. Plant Science
GW: DNA Microarrays and Gene Expression: From Experiments to Data Analysis and Modeling.
(2006). H: Rapid transcriptome changes induced by cytosolic Ca2+ transients reveal ABRE-related sequences as Ca2+-responsive cis elements in Arabidopsis. Plant Cell
(2010). H2O2 mediates the regulation of ABA catabolism and GA biosynthesis in Arabidopsis seed dormancy and germination.
(2009). HW: Characterization and expression profiles of miRNAs in rice seeds. Nucleic Acids Res
(2010). Insights from the comparison of plant genome sequences. Annu Rev Plant Biol
(2008). JD: Global patterns of gene expression in rice cultivars undergoing a susceptible or resistant interaction with the parasitic plant Striga hermonthica. New Phytol
(2007). Khurana JP: F-box proteins in rice. Genome-wide analysis, classification, temporal and spatial gene expression during panicle and seed development, and regulation by light and abiotic stress. Plant Physiol
(2009). Khurana JP: Transcript profiling reveals diverse roles of auxinresponsive genes during reproductive development and abiotic stress in rice.
(2009). Mapping metabolic and transcript temporal switches during germination in rice highlights specific transcription factors and the role of RNA instability in the germination process. Plant Physiol
(2010). Meinke DW: The development of Arabidopsis as a model plant. The Plant Journal
(2008). Morel JB: Susceptibility of rice to the blast fungus, Magnaporthe grisea.
(2007). Mueller-Roeber B: PlnTFDB: an integrative plant transcription factor database.
(2007). Network motifs: theory and experimental approaches. Nat Rev Genet
(1993). NH: Plant bZIP protein DNA binding specificity.
(2010). Nitric oxide functions as a signal and acts upstream of AtCaM3 in thermotolerance in Arabidopsis seedlings. Plant Physiol
(1995). No end yet to messenger RNA 3’ processing! Cell
(2010). Noctor G: Peroxisomal hydrogen peroxide is coupled to biotic defense responses by isochorismate synthase 1 in a daylength-related manner. Plant Physiol
(2009). Noctor G: Redox regulation in photosynthetic organisms: signaling, acclimation, and practical implications. Antioxid Redox Signal
(2009). Ohme-Takagi M: Functional analysis of transcription factors in Arabidopsis. Plant Cell Physiol
(2010). Penning LC, Toegel S: MIQE précis: Practical implementation of minimum standard guidelines for fluorescence-based quantitative real-time PCR experiments.
(2007). Perata P: Transcript profiling of the anoxic rice coleoptile. Plant Physiol
(2005). PJ: Circadian control of messenger RNA stability. Association with a sequence-specific messenger RNA decay pathway. Plant Physiol
(1993). PJ: DST sequences, highly conserved among plant SAUR genes, target reporter transcripts for rapid decay in tobacco. Plant Cell
(1993). PJ: The effect of sequences with high AU content on mRNA stability in tobacco.
(2010). Plant genome sequencing: applications for crop improvement.
(2008). Plant metabolomics reveals conserved and divergent metabolic responses to salinity. Physiol Plant
(2008). Plasma membrane proteome in Arabidopsis and rice. Proteomics
(2007). Plastid signals remodel light signaling networks and are essential for efficient chloroplast biogenesis in Arabidopsis. Plant Cell
(2001). Sonnhammer EL: Automatic clustering of orthologs and in-paralogs from pairwise species comparisons.
(2005). T: MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Res
(2007). The AtGenExpress global stress expression data set: protocols, evaluation and model data analysis of UV-B light, drought and cold stress responses. Plant J
(2008). The impact of Arabidopsis on human health: diversifying our portfolio. Cell
(2007). The rice kinase database. A phylogenomic database for the rice kinome. Plant Physiol
(2009). Transcriptional regulatory networks in response to abiotic stresses in Arabidopsis and grasses. Plant Physiol
(2009). Tuskan GA: Genome-wide identification of lineage-specific genes in Arabidopsis, Oryza and Populus. Genomics
(2006). Tyagi AK: Advances in cereal genomics and applications in crop breeding. Trends Biotechnol
(2007). Tyagi AK: Emerging trends in the functional genomics of the abiotic stress response in crop plants.
(2004). Von Haeseler A: IQPNNI: moving fast through tree space and stopping in time. Mol Biol Evol
(2003). Yamaguchi-Shinozaki K: Interaction between two cis-acting elements, ABRE and DRE, in ABA-dependent expression of Arabidopsis rd29A gene in response to dehydration and high-salinity stresses.
(2004). Yamaguchi-Shinozaki K: Isolation and functional analysis of Arabidopsis stress-inducible NAC transcription factors that bind to a drought-responsive cis-element in the early responsive to dehydration stress 1 promoter. Plant Cell
(2009). Zhang WH: Nitric reductase-dependent nitric oxide production is involved in cold acclimation and freezing tolerance in Arabidopsis. Plant Physiol