Published in J Exp Bot on April 25, 2016
Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol (2004) 101.91
TM4: a free, open-source system for microarray data management and analysis. Biotechniques (2003) 38.02
affy--analysis of Affymetrix GeneChip data at the probe level. Bioinformatics (2004) 32.08
WGCNA: an R package for weighted correlation network analysis. BMC Bioinformatics (2008) 18.58
Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments. FEBS Lett (2004) 11.00
Real-time RT-PCR profiling of over 1400 Arabidopsis transcription factors: unprecedented sensitivity reveals novel root- and shoot-specific genes. Plant J (2004) 6.58
Cloning of the Arabidopsis clock gene TOC1, an autoregulatory response regulator homolog. Science (2000) 5.91
Extension of the visualization tool MapMan to allow statistical analysis of arrays, display of corresponding genes, and comparison with known responses. Plant Physiol (2005) 4.34
Gene network interconnectedness and the generalized topological overlap measure. BMC Bioinformatics (2007) 3.83
Barley mutants lacking chloroplast glutamine synthetase-biochemical and genetic analysis. Plant Physiol (1987) 3.55
EXPANDER--an integrative program suite for microarray data analysis. BMC Bioinformatics (2005) 3.43
Nitrogen uptake, assimilation and remobilization in plants: challenges for sustainable and productive agriculture. Ann Bot (2010) 3.11
The challenge of improving nitrogen use efficiency in crop plants: towards a more central role for genetic variability and quantitative genetics within integrated approaches. J Exp Bot (2007) 3.10
Nitrate Acts as a Signal to Induce Organic Acid Metabolism and Repress Starch Metabolism in Tobacco. Plant Cell (1997) 2.95
PlantTFDB 3.0: a portal for the functional and evolutionary study of plant transcription factors. Nucleic Acids Res (2013) 2.71
Genomic analysis of the nitrate response using a nitrate reductase-null mutant of Arabidopsis. Plant Physiol (2004) 2.57
Photorespiration: players, partners and origin. Trends Plant Sci (2010) 2.23
Expander: from expression microarrays to networks and functions. Nat Protoc (2010) 2.12
Photorespiratory metabolism: genes, mutants, energetics, and redox signaling. Annu Rev Plant Biol (2009) 2.06
Flavonoids: biosynthesis, biological functions, and biotechnological applications. Front Plant Sci (2012) 1.84
Topological analysis and interactive visualization of biological networks and protein structures. Nat Protoc (2012) 1.82
The Arabidopsis NAC transcription factor VNI2 integrates abscisic acid signals into leaf senescence via the COR/RD genes. Plant Cell (2011) 1.63
Nitrate assimilation in plant shoots depends on photorespiration. Proc Natl Acad Sci U S A (2004) 1.54
How relevant are flavonoids as antioxidants in plants? Trends Plant Sci (2009) 1.48
ABR1, an APETALA2-domain transcription factor that functions as a repressor of ABA response in Arabidopsis. Plant Physiol (2005) 1.48
Reassimilation of Photorespiratory Ammonium in Lotus japonicus Plants Deficient in Plastidic Glutamine Synthetase. PLoS One (2015) 1.47
Root, root hair, and symbiotic mutants of the model legume Lotus japonicus. Mol Plant Microbe Interact (2002) 1.47
Dissection of symbiosis and organ development by integrated transcriptome analysis of lotus japonicus mutant and wild-type plants. PLoS One (2009) 1.38
PathExpress: a web-based tool to identify relevant pathways in gene expression data. Nucleic Acids Res (2007) 1.37
Integrative functional genomics of salt acclimatization in the model legume Lotus japonicus. Plant J (2007) 1.31
LZF1, a HY5-regulated transcriptional factor, functions in Arabidopsis de-etiolation. Plant J (2008) 1.27
Distinct signalling pathways and transcriptome response signatures differentiate ammonium- and nitrate-supplied plants. Plant Cell Environ (2010) 1.26
Jumonji domain protein JMJD5 functions in both the plant and human circadian systems. Proc Natl Acad Sci U S A (2010) 1.25
ROOT HAIR DEFECTIVE3 family of dynamin-like GTPases mediates homotypic endoplasmic reticulum fusion and is essential for Arabidopsis development. Plant Physiol (2013) 1.20
Arabidopsis response regulators ARR3 and ARR4 play cytokinin-independent roles in the control of circadian period. Plant Cell (2005) 1.18
Systemic signaling of the plant nitrogen status triggers specific transcriptome responses depending on the nitrogen source in Medicago truncatula. Plant Physiol (2008) 1.13
Regulation of leaf senescence by NTL9-mediated osmotic stress signaling in Arabidopsis. Mol Cells (2008) 1.12
NAI1 gene encodes a basic-helix-loop-helix-type putative transcription factor that regulates the formation of an endoplasmic reticulum-derived structure, the ER body. Plant Cell (2004) 1.10
Effect of ammonium and nitrate nutrition on some physiological processes in higher plants - growth, photosynthesis, photorespiration, and water relations. Plant Biol (Stuttg) (2006) 1.04
Polycomb group proteins are required to couple seed coat initiation to fertilization. Proc Natl Acad Sci U S A (2011) 1.01
ATML1 promotes epidermal cell differentiation in Arabidopsis shoots. Development (2013) 1.00
Deficiency in plastidic glutamine synthetase alters proline metabolism and transcriptomic response in Lotus japonicus under drought stress. New Phytol (2010) 0.97
Arabidopsis RUGOSA2 encodes an mTERF family member required for mitochondrion, chloroplast and leaf development. Plant J (2011) 0.97
Organizer-Derived WOX5 Signal Maintains Root Columella Stem Cells through Chromatin-Mediated Repression of CDF4 Expression. Dev Cell (2015) 0.97
Isolation of photorespiratory mutants from Lotus japonicus deficient in glutamine synthetase. Physiol Plant (2002) 0.97
Systems analysis of transcriptome data provides new hypotheses about Arabidopsis root response to nitrate treatments. Front Plant Sci (2014) 0.96
Glutamine synthetase in legumes: recent advances in enzyme structure and functional genomics. Int J Mol Sci (2012) 0.96
Gene networks for nitrogen sensing, signaling, and response in Arabidopsis thaliana. Wiley Interdiscip Rev Syst Biol Med (2010) 0.93
Arabidopsis noncoding RNA mediates control of photomorphogenesis by red light. Proc Natl Acad Sci U S A (2014) 0.91
Comparative functional genomics of salt stress in related model and cultivated plants identifies and overcomes limitations to translational genomics. PLoS One (2011) 0.91
Systems approach identifies TGA1 and TGA4 transcription factors as important regulatory components of the nitrate response of Arabidopsis thaliana roots. Plant J (2014) 0.90
Photorespiration and nitrate assimilation: a major intersection between plant carbon and nitrogen. Photosynth Res (2014) 0.87
Molecular analysis of two mutants from Lotus japonicus deficient in plastidic glutamine synthetase: functional properties of purified GLN2 enzymes. Planta (2006) 0.85
Nitrate assimilation in Lotus japonicus. J Exp Bot (2005) 0.84
Transcriptomic and metabolic changes associated with photorespiratory ammonium accumulation in the model legume Lotus japonicus. Plant Physiol (2013) 0.84
Photorespiratory metabolism and nodule function: behavior of Lotus japonicus mutants deficient in plastid glutamine synthetase. Mol Plant Microbe Interact (2012) 0.83
Reassimilation of ammonium in Lotus japonicus. J Exp Bot (2014) 0.82
A plant-specific HUA2-LIKE (HULK) gene family in Arabidopsis thaliana is essential for development. Plant J (2014) 0.80
Jasmonic acid interacts with abscisic acid to regulate plant responses to water stress conditions. Plant Signal Behav (2015) 0.80
Modulation of phenolic metabolism under stress conditions in a Lotus japonicus mutant lacking plastidic glutamine synthetase. Front Plant Sci (2015) 0.79
Alleviation of low temperature sweetening in potato by expressing Arabidopsis pyruvate decarboxylase gene and stress-inducible rd29A : A preliminary study. Physiol Mol Biol Plants (2011) 0.78
Cellular Stress Following Water Deprivation in the Model Legume Lotus japonicus. Cells (2012) 0.78
A small subfamily of Arabidopsis RADIALIS-LIKE SANT/MYB genes: a link to HOOKLESS1-mediated signal transduction during early morphogenesis. Biosci Biotechnol Biochem (2008) 0.77
Ribonuclease J is required for chloroplast and embryo development in Arabidopsis. J Exp Bot (2015) 0.76
Negative phototropism is seen in Arabidopsis inflorescences when auxin signaling is reduced to a minimal level by an Aux/IAA dominant mutation, axr2. Plant Signal Behav (2015) 0.76
Photoperiod sensitivity of the Arabidopsis circadian clock is tissue-specific. Plant Signal Behav (2015) 0.76