Published in Plant Methods on July 08, 2008
Evaluation of candidate reference genes for expression studies in Pisum sativum under different experimental conditions. Planta (2010) 1.45
Defining reference genes in Oryza sativa using organ, development, biotic and abiotic transcriptome datasets. BMC Plant Biol (2010) 1.41
SoyDB: a knowledge database of soybean transcription factors. BMC Plant Biol (2010) 1.40
Legume transcription factor genes: what makes legumes so special? Plant Physiol (2009) 1.30
Reference gene selection for quantitative real-time PCR normalization in Caragana intermedia under different abiotic stress conditions. PLoS One (2013) 1.26
Reference gene selection for quantitative real-time PCR normalization in Quercus suber. PLoS One (2012) 1.15
Identification of superior reference genes for data normalisation of expression studies via quantitative PCR in hybrid roses (Rosa hybrida). BMC Res Notes (2011) 1.09
The B-3 ethylene response factor MtERF1-1 mediates resistance to a subset of root pathogens in Medicago truncatula without adversely affecting symbiosis with rhizobia. Plant Physiol (2010) 1.02
Global reprogramming of transcription and metabolism in Medicago truncatula during progressive drought and after rewatering. Plant Cell Environ (2014) 0.99
Large-scale analysis of putative soybean regulatory gene expression identifies a Myb gene involved in soybean nodule development. Plant Physiol (2009) 0.99
High-resolution melting analysis for SNP genotyping and mapping in tetraploid alfalfa (Medicago sativa L.). Mol Breed (2011) 0.97
Extensive modulation of the transcription factor transcriptome during somatic embryogenesis in Arabidopsis thaliana. PLoS One (2013) 0.93
The C2H2 transcription factor regulator of symbiosome differentiation represses transcription of the secretory pathway gene VAMP721a and promotes symbiosome development in Medicago truncatula. Plant Cell (2013) 0.92
Identification of transcription factors involved in root apex responses to salt stress in Medicago truncatula. Mol Genet Genomics (2008) 0.92
PlantTFcat: an online plant transcription factor and transcriptional regulator categorization and analysis tool. BMC Bioinformatics (2013) 0.90
Post-genomics studies of developmental processes in legume seeds. Plant Physiol (2009) 0.89
High phosphate reduces host ability to develop arbuscular mycorrhizal symbiosis without affecting root calcium spiking responses to the fungus. Front Plant Sci (2013) 0.86
An endogenous artificial microRNA system for unraveling the function of root endosymbioses related genes in Medicago truncatula. BMC Plant Biol (2013) 0.83
Quantitative RT-PCR analysis of 20 transcription factor genes of MADS, ARF, HAP2, MBF and HB families in moisture stressed shoot and root tissues of sorghum. Physiol Mol Biol Plants (2012) 0.82
Reference gene selection in the desert plant Eremosparton songoricum. Int J Mol Sci (2012) 0.81
The identification of novel loci required for appropriate nodule development in Medicago truncatula. BMC Plant Biol (2013) 0.81
Evaluation of putative reference genes for quantitative real-time PCR normalization in Lilium regale during development and under stress. PeerJ (2016) 0.81
Alfalfa Cellulose synthase gene expression under abiotic stress: a Hitchhiker's guide to RT-qPCR normalization. PLoS One (2014) 0.80
Identification and expression of the WRKY transcription factors of Carica papaya in response to abiotic and biotic stresses. Mol Biol Rep (2014) 0.79
Abscisic acid and lateral root organ defective/NUMEROUS INFECTIONS AND POLYPHENOLICS modulate root elongation via reactive oxygen species in Medicago truncatula. Plant Physiol (2014) 0.78
Transcriptome analysis of secondary cell wall development in Medicago truncatula. BMC Genomics (2016) 0.76
Tissue specificity and differential expression of transcription factors in tomato provide hints of unique regulatory networks during fruit ripening. Plant Signal Behav (2012) 0.75
MtSWEET11, a Nodule-Specific Sucrose Transporter of Medicago truncatula. Plant Physiol (2016) 0.75
Identifying Stable Reference Genes for qRT-PCR Normalisation in Gene Expression Studies of Narrow-Leafed Lupin (Lupinus angustifolius L.). PLoS One (2016) 0.75
CdSe/ZnS quantum dots trigger DNA repair and antioxidant enzyme systems in Medicago sativa cells in suspension culture. BMC Biotechnol (2013) 0.75
Transcriptional profiling of Medicago truncatula during Erysiphe pisi infection. Front Plant Sci (2015) 0.75
Overexpression of PDH45 or SUV3 helicases in rice leads to delayed leaf senescence-associated events. Protoplasma (2016) 0.75
Primer3 on the WWW for general users and for biologist programmers. Methods Mol Biol (2000) 128.08
Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biol (2002) 82.19
Assumption-free analysis of quantitative real-time polymerase chain reaction (PCR) data. Neurosci Lett (2003) 18.34
Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis. Plant Physiol (2005) 15.10
Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science (2000) 11.68
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
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) 4.99
A plant regulator controlling development of symbiotic root nodules. Nature (1999) 4.51
Legumes: importance and constraints to greater use. Plant Physiol (2003) 4.36
DATF: a database of Arabidopsis transcription factors. Bioinformatics (2005) 4.34
NSP1 of the GRAS protein family is essential for rhizobial Nod factor-induced transcription. Science (2005) 3.40
A gene expression atlas of the model legume Medicago truncatula. Plant J (2008) 3.38
Nodulation signaling in legumes requires NSP2, a member of the GRAS family of transcriptional regulators. Science (2005) 3.19
Repressor- and activator-type ethylene response factors functioning in jasmonate signaling and disease resistance identified via a genome-wide screen of Arabidopsis transcription factor gene expression. Plant Physiol (2005) 2.99
Short technical reports. Modification of the TRI reagent procedure for isolation of RNA from polysaccharide- and proteoglycan-rich sources. Biotechniques (1995) 2.90
Genome-wide reprogramming of metabolism and regulatory networks of Arabidopsis in response to phosphorus. Plant Cell Environ (2007) 2.71
Sequencing the genespaces of Medicago truncatula and Lotus japonicus. Plant Physiol (2005) 2.60
MtHAP2-1 is a key transcriptional regulator of symbiotic nodule development regulated by microRNA169 in Medicago truncatula. Genes Dev (2006) 2.41
An ERF transcription factor in Medicago truncatula that is essential for Nod factor signal transduction. Plant Cell (2007) 2.20
A quantitative RT-PCR platform for high-throughput expression profiling of 2500 rice transcription factors. Plant Methods (2007) 2.08
Moving forward in reverse: genetic technologies to enable genome-wide phenomic screens in Arabidopsis. Nat Rev Genet (2006) 1.97
RARTF: database and tools for complete sets of Arabidopsis transcription factors. DNA Res (2005) 1.95
Expression profiling in Medicago truncatula identifies more than 750 genes differentially expressed during nodulation, including many potential regulators of the symbiotic program. Plant Physiol (2004) 1.91
Identification of 118 Arabidopsis transcription factor and 30 ubiquitin-ligase genes responding to chitin, a plant-defense elicitor. Mol Plant Microbe Interact (2007) 1.77
Overlaps in the transcriptional profiles of Medicago truncatula roots inoculated with two different Glomus fungi provide insights into the genetic program activated during arbuscular mycorrhiza. Plant Physiol (2005) 1.76
Legume transcription factors: global regulators of plant development and response to the environment. Plant Physiol (2007) 1.64
Global analysis of gene expression in yeast. Funct Integr Genomics (2002) 1.58
An alfalfa cDNA encodes a protein with homology to translationally controlled human tumor protein. Plant Mol Biol (1992) 1.55
A Krüppel-like zinc finger protein is involved in nitrogen-fixing root nodule organogenesis. Genes Dev (2000) 1.10
A Lotus basic leucine zipper protein with a RING-finger motif negatively regulates the developmental program of nodulation. Proc Natl Acad Sci U S A (2002) 1.10
Transcriptional profiling of Medicago truncatula meristematic root cells. BMC Plant Biol (2008) 1.04
The Lotus japonicus ndx gene family is involved in nodule function and maintenance. Plant Mol Biol (2003) 0.80
MAPMAN: a user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes. Plant J (2004) 15.51
Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis. Plant Physiol (2005) 15.10
TIGR Gene Indices clustering tools (TGICL): a software system for fast clustering of large EST datasets. Bioinformatics (2003) 12.00
Empirical analysis of transcriptional activity in the Arabidopsis genome. Science (2003) 11.62
Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies. Nucleic Acids Res (2003) 11.03
Origins of the E. coli strain causing an outbreak of hemolytic-uremic syndrome in Germany. N Engl J Med (2011) 9.37
RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics. Nucleic Acids Res (2012) 7.48
GMD@CSB.DB: the Golm Metabolome Database. Bioinformatics (2004) 7.33
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
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) 4.99
The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature (2011) 4.94
Full-length messenger RNA sequences greatly improve genome annotation. Genome Biol (2002) 4.90
Sequencing Medicago truncatula expressed sequenced tags using 454 Life Sciences technology. BMC Genomics (2006) 4.54
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
PHO2, microRNA399, and PHR1 define a phosphate-signaling pathway in plants. Plant Physiol (2006) 4.33
Development and evaluation of an Arabidopsis whole genome Affymetrix probe array. Plant J (2004) 4.30
Complete reannotation of the Arabidopsis genome: methods, tools, protocols and the final release. BMC Biol (2005) 4.18
Sugars and circadian regulation make major contributions to the global regulation of diurnal gene expression in Arabidopsis. Plant Cell (2005) 4.13
The institute for genomic research Osa1 rice genome annotation database. Plant Physiol (2005) 3.96
Cross-referencing eukaryotic genomes: TIGR Orthologous Gene Alignments (TOGA). Genome Res (2002) 3.93
Eleven golden rules of quantitative RT-PCR. Plant Cell (2008) 3.77
Coordination of carbon supply and plant growth. Plant Cell Environ (2007) 3.63
A gene expression atlas of the model legume Medicago truncatula. Plant J (2008) 3.38
Sugar-induced increases in trehalose 6-phosphate are correlated with redox activation of ADPglucose pyrophosphorylase and higher rates of starch synthesis in Arabidopsis thaliana. Biochem J (2006) 3.36
PageMan: an interactive ontology tool to generate, display, and annotate overview graphs for profiling experiments. BMC Bioinformatics (2006) 3.34
The TIGR rice genome annotation resource: annotating the rice genome and creating resources for plant biologists. Nucleic Acids Res (2003) 3.12
Comparative genomics of Brassica oleracea and Arabidopsis thaliana reveal gene loss, fragmentation, and dispersal after polyploidy. Plant Cell (2006) 3.10
Annotation of the Arabidopsis genome. Plant Physiol (2003) 3.06
Repressor- and activator-type ethylene response factors functioning in jasmonate signaling and disease resistance identified via a genome-wide screen of Arabidopsis transcription factor gene expression. Plant Physiol (2005) 2.99
The genetic map of Artemisia annua L. identifies loci affecting yield of the antimalarial drug artemisinin. Science (2010) 2.92
Steps towards an integrated view of nitrogen metabolism. J Exp Bot (2002) 2.84
A guide to using MapMan to visualize and compare Omics data in plants: a case study in the crop species, Maize. Plant Cell Environ (2009) 2.77
Genome-wide reprogramming of metabolism and regulatory networks of Arabidopsis in response to phosphorus. Plant Cell Environ (2007) 2.71
Small cysteine-rich peptides resembling antimicrobial peptides have been under-predicted in plants. Plant J (2007) 2.71
Genomic and metabolic prediction of complex heterotic traits in hybrid maize. Nat Genet (2012) 2.70
The interdependence of mechanisms underlying climate-driven vegetation mortality. Trends Ecol Evol (2011) 2.67
Regulation of flowering by trehalose-6-phosphate signaling in Arabidopsis thaliana. Science (2013) 2.66
MicroRNA399 is a long-distance signal for the regulation of plant phosphate homeostasis. Plant J (2007) 2.65
The TIGR Plant Transcript Assemblies database. Nucleic Acids Res (2006) 2.62
Legume genome evolution viewed through the Medicago truncatula and Lotus japonicus genomes. Proc Natl Acad Sci U S A (2006) 2.61
ADP-glucose pyrophosphorylase is activated by posttranslational redox-modification in response to light and to sugars in leaves of Arabidopsis and other plant species. Plant Physiol (2003) 2.55
Circadian control of carbohydrate availability for growth in Arabidopsis plants at night. Proc Natl Acad Sci U S A (2010) 2.52
Pyrimidine and purine biosynthesis and degradation in plants. Annu Rev Plant Biol (2006) 2.48
Starch as a major integrator in the regulation of plant growth. Proc Natl Acad Sci U S A (2009) 2.47
Global transcript levels respond to small changes of the carbon status during progressive exhaustion of carbohydrates in Arabidopsis rosettes. Plant Physiol (2008) 2.43
Starch synthesis in potato tubers is regulated by post-translational redox modification of ADP-glucose pyrophosphorylase: a novel regulatory mechanism linking starch synthesis to the sucrose supply. Plant Cell (2002) 2.40
Symbiotic leghemoglobins are crucial for nitrogen fixation in legume root nodules but not for general plant growth and development. Curr Biol (2005) 2.35
Identification of nutrient-responsive Arabidopsis and rapeseed microRNAs by comprehensive real-time polymerase chain reaction profiling and small RNA sequencing. Plant Physiol (2009) 2.33
Integration of metabolite with transcript and enzyme activity profiling during diurnal cycles in Arabidopsis rosettes. Genome Biol (2006) 2.25
Toward sequencing cotton (Gossypium) genomes. Plant Physiol (2007) 2.16
Adjustment of growth, starch turnover, protein content and central metabolism to a decrease of the carbon supply when Arabidopsis is grown in very short photoperiods. Plant Cell Environ (2009) 2.14
Temporal responses of transcripts, enzyme activities and metabolites after adding sucrose to carbon-deprived Arabidopsis seedlings. Plant J (2007) 2.09
Transcript profiling coupled with spatial expression analyses reveals genes involved in distinct developmental stages of an arbuscular mycorrhizal symbiosis. Plant Cell (2003) 2.09
A quantitative RT-PCR platform for high-throughput expression profiling of 2500 rice transcription factors. Plant Methods (2007) 2.08
Sensitive and high throughput metabolite assays for inorganic pyrophosphate, ADPGlc, nucleotide phosphates, and glycolytic intermediates based on a novel enzymic cycling system. Plant J (2002) 2.08
A Linear Magnetic Field Scan Driver. Concepts Magn Reson Part B Magn Reson Eng (2009) 2.02
Accumulation of genome-specific transcripts, transcription factors and phytohormonal regulators during early stages of fiber cell development in allotetraploid cotton. Plant J (2006) 2.01
Global changes in transcription orchestrate metabolic differentiation during symbiotic nitrogen fixation in Lotus japonicus. Plant J (2004) 1.99
Reprogramming a maize plant: transcriptional and metabolic changes induced by the fungal biotroph Ustilago maydis. Plant J (2008) 1.94
A comparative genomic analysis of diverse clonal types of enterotoxigenic Escherichia coli reveals pathovar-specific conservation. Infect Immun (2010) 1.92
Genome-wide identification of nodule-specific transcripts in the model legume Medicago truncatula. Plant Physiol (2002) 1.89
Ribosome and transcript copy numbers, polysome occupancy and enzyme dynamics in Arabidopsis. Mol Syst Biol (2009) 1.86
Robin: an intuitive wizard application for R-based expression microarray quality assessment and analysis. Plant Physiol (2010) 1.82
Identification of 118 Arabidopsis transcription factor and 30 ubiquitin-ligase genes responding to chitin, a plant-defense elicitor. Mol Plant Microbe Interact (2007) 1.77
Metabolic and signaling aspects underpinning the regulation of plant carbon nitrogen interactions. Mol Plant (2010) 1.75
Opportunities for improving phosphorus-use efficiency in crop plants. New Phytol (2012) 1.74
Barley grain maturation and germination: metabolic pathway and regulatory network commonalities and differences highlighted by new MapMan/PageMan profiling tools. Plant Physiol (2008) 1.73
Variation of enzyme activities and metabolite levels in 24 Arabidopsis accessions growing in carbon-limited conditions. Plant Physiol (2006) 1.72
Mercator: a fast and simple web server for genome scale functional annotation of plant sequence data. Plant Cell Environ (2013) 1.69
An atlas of over 90,000 conserved noncoding sequences provides insight into crucifer regulatory regions. Nat Genet (2013) 1.68
Background removal procedure for rapid scan EPR. J Magn Reson (2008) 1.68
Large-scale transcriptome analysis in chickpea (Cicer arietinum L.), an orphan legume crop of the semi-arid tropics of Asia and Africa. Plant Biotechnol J (2011) 1.66