Published in BMC Genomics on May 24, 2010
Using RNA-Seq for gene identification, polymorphism detection and transcript profiling in two alfalfa genotypes with divergent cell wall composition in stems. BMC Genomics (2011) 1.52
Transcript profiling of common bean (Phaseolus vulgaris L.) using the GeneChip Soybean Genome Array: optimizing analysis by masking biased probes. BMC Plant Biol (2010) 0.90
Proteomic analysis of cell walls of two developmental stages of alfalfa stems. Front Plant Sci (2012) 0.84
Alfalfa Cellulose synthase gene expression under abiotic stress: a Hitchhiker's guide to RT-qPCR normalization. PLoS One (2014) 0.80
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MAPMAN: a user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes. Plant J (2004) 15.51
Intra- and interspecific variation in primate gene expression patterns. Science (2002) 7.92
Receptor-like kinases from Arabidopsis form a monophyletic gene family related to animal receptor kinases. Proc Natl Acad Sci U S A (2001) 7.01
Large-scale identification of single-feature polymorphisms in complex genomes. Genome Res (2003) 6.04
Lignin modification improves fermentable sugar yields for biofuel production. Nat Biotechnol (2007) 5.91
Sex-dependent gene expression and evolution of the Drosophila transcriptome. Science (2003) 5.67
Collapsed xylem phenotype of Arabidopsis identifies mutants deficient in cellulose deposition in the secondary cell wall. Plant Cell (1997) 5.29
Elevated gene expression levels distinguish human from non-human primate brains. Proc Natl Acad Sci U S A (2003) 4.69
The irregular xylem3 locus of Arabidopsis encodes a cellulose synthase required for secondary cell wall synthesis. Plant Cell (1999) 4.69
Comparative analysis of the receptor-like kinase family in Arabidopsis and rice. Plant Cell (2004) 4.59
Transcription switches for protoxylem and metaxylem vessel formation. Genes Dev (2005) 4.47
Interactions among three distinct CesA proteins essential for cellulose synthesis. Proc Natl Acad Sci U S A (2003) 3.80
Estimating genome conservation between crop and model legume species. Proc Natl Acad Sci U S A (2004) 3.55
Rapid evolution of male-biased gene expression in Drosophila. Proc Natl Acad Sci U S A (2003) 3.45
A neutral model of transcriptome evolution. PLoS Biol (2004) 3.44
Multiple cellulose synthase catalytic subunits are required for cellulose synthesis in Arabidopsis. Plant Cell (2000) 3.41
PageMan: an interactive ontology tool to generate, display, and annotate overview graphs for profiling experiments. BMC Bioinformatics (2006) 3.34
The NAC transcription factors NST1 and NST2 of Arabidopsis regulate secondary wall thickenings and are required for anther dehiscence. Plant Cell (2005) 3.28
A battery of transcription factors involved in the regulation of secondary cell wall biosynthesis in Arabidopsis. Plant Cell (2008) 3.11
Coexpression of neighboring genes in Caenorhabditis elegans is mostly due to operons and duplicate genes. Genome Res (2003) 3.10
Genome organization in dicots: genome duplication in Arabidopsis and synteny between soybean and Arabidopsis. Proc Natl Acad Sci U S A (2000) 3.07
SND1, a NAC domain transcription factor, is a key regulator of secondary wall synthesis in fibers of Arabidopsis. Plant Cell (2006) 3.00
A receptor-like kinase mediates the response of Arabidopsis cells to the inhibition of cellulose synthesis. Curr Biol (2007) 2.98
NAC transcription factors, NST1 and NST3, are key regulators of the formation of secondary walls in woody tissues of Arabidopsis. Plant Cell (2007) 2.85
Sister grouping of chimpanzees and humans as revealed by genome-wide phylogenetic analysis of brain gene expression profiles. Proc Natl Acad Sci U S A (2004) 2.74
Common pattern of evolution of gene expression level and protein sequence in Drosophila. Mol Biol Evol (2004) 2.66
MYB58 and MYB63 are transcriptional activators of the lignin biosynthetic pathway during secondary cell wall formation in Arabidopsis. Plant Cell (2009) 2.57
The MYB46 transcription factor is a direct target of SND1 and regulates secondary wall biosynthesis in Arabidopsis. Plant Cell (2007) 2.56
Coexpression of neighboring genes in the genome of Arabidopsis thaliana. Genome Res (2004) 2.52
Cross-species microarray transcript profiling reveals high constitutive expression of metal homeostasis genes in shoots of the zinc hyperaccumulator Arabidopsis halleri. Plant J (2004) 2.52
A sequence-based genetic map of Medicago truncatula and comparison of marker colinearity with M. sativa. Genetics (2004) 2.43
SNPs matter: impact on detection of differential expression. Nat Methods (2007) 2.35
A new resource for cereal genomics: 22K barley GeneChip comes of age. Plant Physiol (2004) 2.33
A comparison of the Thlaspi caerulescens and Thlaspi arvense shoot transcriptomes. New Phytol (2006) 2.30
Expression of cellulose synthase-like (Csl) genes in insect cells reveals that CslA family members encode mannan synthases. Proc Natl Acad Sci U S A (2005) 2.18
EgMYB2, a new transcriptional activator from Eucalyptus xylem, regulates secondary cell wall formation and lignin biosynthesis. Plant J (2005) 2.15
Coexpression, coregulation, and cofunctionality of neighboring genes in eukaryotic genomes. Genomics (2007) 1.88
Genome-wide patterns of expression in Drosophila pure species and hybrid males. Mol Biol Evol (2003) 1.86
Coordinate gene regulation during hematopoiesis is related to genomic organization. PLoS Biol (2007) 1.77
Genetic regulation of gene expression during shoot development in Arabidopsis. Genetics (2005) 1.77
Arabidopsis MYB26/MALE STERILE35 regulates secondary thickening in the endothecium and is essential for anther dehiscence. Plant Cell (2007) 1.71
Transcriptional regulation in wood formation. Trends Plant Sci (2007) 1.64
Two leucine-rich repeat receptor kinases mediate signaling, linking cell wall biosynthesis and ACC synthase in Arabidopsis. Plant Cell (2008) 1.62
Plant receptor-like serine threonine kinases: roles in signaling and plant defense. Mol Plant Microbe Interact (2008) 1.59
A cell wall-associated, receptor-like protein kinase. J Biol Chem (1996) 1.53
A method for cross-species gene expression analysis with high-density oligonucleotide arrays. Nucleic Acids Res (2004) 1.51
Using genomic DNA-based probe-selection to improve the sensitivity of high-density oligonucleotide arrays when applied to heterologous species. Plant Methods (2005) 1.49
Functional analysis of tobacco LIM protein Ntlim1 involved in lignin biosynthesis. Plant J (2000) 1.39
Natural selection promotes the conservation of linkage of co-expressed genes. Trends Genet (2002) 1.39
Islands of co-expressed neighbouring genes in Arabidopsis thaliana suggest higher-order chromosome domains. Plant J (2006) 1.33
WAKs: cell wall-associated kinases linking the cytoplasm to the extracellular matrix. Plant Mol Biol (2001) 1.27
Local coexpression domains of two to four genes in the genome of Arabidopsis. Plant Physiol (2005) 1.18
Gene expression neighborhoods. J Biol (2002) 1.13
Loosening lignin's grip on biofuel production. Nat Biotechnol (2007) 1.13
Identification and utilization of inter-species conserved (ISC) probesets on Affymetrix human GeneChip platforms for the optimization of the assessment of expression patterns in non human primate (NHP) samples. BMC Bioinformatics (2004) 1.12
Utilization of tomato microarrays for comparative gene expression analysis in the Solanaceae. J Exp Bot (2005) 1.11
Chromosomal clustering of a human transcriptome reveals regulatory background. BMC Bioinformatics (2005) 1.11
Cross-species analysis of gene expression in non-model mammals: reproducibility of hybridization on high density oligonucleotide microarrays. BMC Genomics (2007) 1.07
Arabidopsis microarrays identify conserved and differentially expressed genes involved in shoot growth and development from distantly related plant species. Plant J (2003) 1.03
Cross-species hybridizations on a multi-species cDNA microarray to identify evolutionarily conserved genes expressed in oocytes. BMC Genomics (2006) 1.03
Local coexpression domains in the genome of rice show no microsynteny with Arabidopsis domains. Plant Mol Biol (2007) 0.93
Single-species microarrays and comparative transcriptomics. PLoS One (2008) 0.86
Legumes: importance and constraints to greater use. Plant Physiol (2003) 4.36
RNA-Seq Atlas of Glycine max: a guide to the soybean transcriptome. BMC Plant Biol (2010) 3.12
Small cysteine-rich peptides resembling antimicrobial peptides have been under-predicted in plants. Plant J (2007) 2.71
Genome organization of more than 300 defensin-like genes in Arabidopsis. Plant Physiol (2005) 2.54
Transcript profiling coupled with spatial expression analyses reveals genes involved in distinct developmental stages of an arbuscular mycorrhizal symbiosis. Plant Cell (2003) 2.09
Genome-wide identification of nodule-specific transcripts in the model legume Medicago truncatula. Plant Physiol (2002) 1.89
Computational identification and characterization of novel genes from legumes. Plant Physiol (2004) 1.67
Central cell-derived peptides regulate early embryo patterning in flowering plants. Science (2014) 1.66
Phosphorus stress in common bean: root transcript and metabolic responses. Plant Physiol (2007) 1.65
Sequencing and analysis of common bean ESTs. Building a foundation for functional genomics. Plant Physiol (2005) 1.61
Using RNA-Seq for gene identification, polymorphism detection and transcript profiling in two alfalfa genotypes with divergent cell wall composition in stems. BMC Genomics (2011) 1.52
Signaling of phosphorus deficiency-induced gene expression in white lupin requires sugar and phloem transport. Plant J (2005) 1.50
Transcript analysis of early nodulation events in Medicago truncatula. Plant Physiol (2005) 1.49
Phenotypic and genomic analyses of a fast neutron mutant population resource in soybean. Plant Physiol (2011) 1.45
The composition and origins of genomic variation among individuals of the soybean reference cultivar Williams 82. Plant Physiol (2010) 1.42
Nylon filter arrays reveal differential gene expression in proteoid roots of white lupin in response to phosphorus deficiency. Plant Physiol (2003) 1.40
Essential role of MYB transcription factor: PvPHR1 and microRNA: PvmiR399 in phosphorus-deficiency signalling in common bean roots. Plant Cell Environ (2008) 1.35
Complementary genetic and genomic approaches help characterize the linkage group I seed protein QTL in soybean. BMC Plant Biol (2010) 1.31
RNA interference identifies a calcium-dependent protein kinase involved in Medicago truncatula root development. Plant Cell (2005) 1.26
MtDB: a database for personalized data mining of the model legume Medicago truncatula transcriptome. Nucleic Acids Res (2003) 1.22
An RNA-Seq transcriptome analysis of orthophosphate-deficient white lupin reveals novel insights into phosphorus acclimation in plants. Plant Physiol (2012) 1.21
Differential response of the plant Medicago truncatula to its symbiont Sinorhizobium meliloti or an exopolysaccharide-deficient mutant. Proc Natl Acad Sci U S A (2008) 1.20
Integrating microarray analysis and the soybean genome to understand the soybeans iron deficiency response. BMC Genomics (2009) 1.17
MicroRNA expression profile in common bean (Phaseolus vulgaris) under nutrient deficiency stresses and manganese toxicity. New Phytol (2010) 1.17
UDP-sugar pyrophosphorylase is essential for pollen development in Arabidopsis. Planta (2006) 1.12
Systemic signaling and local sensing of phosphate in common bean: cross-talk between photosynthate and microRNA399. Mol Plant (2010) 1.07
A transient decrease in reactive oxygen species in roots leads to root hair deformation in the legume-rhizobia symbiosis. New Phytol (2007) 1.06
Global changes in the transcript and metabolic profiles during symbiotic nitrogen fixation in phosphorus-stressed common bean plants. Plant Physiol (2009) 1.05
Localization of superoxide dismutases and hydrogen peroxide in legume root nodules. Mol Plant Microbe Interact (2004) 1.05
Genomic and genetic control of phosphate stress in legumes. Plant Physiol (2007) 1.02
An integrative approach to genomic introgression mapping. Plant Physiol (2010) 1.01
An RNA-Seq based gene expression atlas of the common bean. BMC Genomics (2014) 1.01
Mendelian and non-Mendelian regulation of gene expression in maize. PLoS Genet (2013) 0.99
Transgenic proteoid roots of white lupin: a vehicle for characterizing and silencing root genes involved in adaptation to P stress. Plant J (2005) 0.98
Nitrogen fixation by white lupin under phosphorus deficiency. Ann Bot (2006) 0.97
Novel paralogous gene families with potential function in legume nodules and seeds. Curr Opin Plant Biol (2006) 0.97
Insights into symbiotic nitrogen fixation in Medicago truncatula. Mol Plant Microbe Interact (2006) 0.96
Biodegradation of atrazine in transgenic plants expressing a modified bacterial atrazine chlorohydrolase (atzA) gene. Plant Biotechnol J (2005) 0.95
Physiological and molecular characterization of aluminum resistance in Medicago truncatula. BMC Plant Biol (2008) 0.95
Recruitment of novel calcium-binding proteins for root nodule symbiosis in Medicago truncatula. Plant Physiol (2006) 0.95
White lupin cluster root acclimation to phosphorus deficiency and root hair development involve unique glycerophosphodiester phosphodiesterases. Plant Physiol (2011) 0.94
Update on lupin cluster roots. Update on white lupin cluster root acclimation to phosphorus deficiency. Plant Physiol (2011) 0.93
Optimizing on-farm pretreatment of perennial grasses for fuel ethanol production. Bioresour Technol (2010) 0.92
Dietary fiber supplementation for fecal incontinence: a randomized clinical trial. Res Nurs Health (2014) 0.92
Gene expression patterns are correlated with genomic and genic structure in soybean. Genome (2011) 0.91
Cell wall composition as a maize defense mechanism against corn borers. Phytochemistry (2011) 0.91
Transcript profiling of common bean (Phaseolus vulgaris L.) using the GeneChip Soybean Genome Array: optimizing analysis by masking biased probes. BMC Plant Biol (2010) 0.90
Regulatory patterns of a large family of defensin-like genes expressed in nodules of Medicago truncatula. PLoS One (2013) 0.90
Grafting between model legumes demonstrates roles for roots and shoots in determining nodule type and host/rhizobia specificity. J Exp Bot (2005) 0.88
A standardized method for analysis of Medicago truncatula phenotypic development. Plant Physiol (2006) 0.86
Comment on "Carbon-negative biofuels from low-input high-diversity grassland biomass". Science (2007) 0.86
Magnetic Levitation of MC3T3 Osteoblast Cells as a Ground-Based Simulation of Microgravity. Microgravity Sci Technol (2009) 0.84
Comparing community and specialty provider-based recruitment in a randomized clinical trial: clinical trial in fecal incontinence. Res Nurs Health (2010) 0.83
Symptoms associated with dietary fiber supplementation over time in individuals with fecal incontinence. Nurs Res (2011) 0.83
Rapid and specific method for evaluating Streptomyces competitive dynamics in complex soil communities. Appl Environ Microbiol (2010) 0.82
A comparison of constitutive promoters for expression of transgenes in alfalfa (Medicago sativa). Transgenic Res (2004) 0.82
Covalent cross-linking of cell-wall polysaccharides through esterified diferulates as a maize resistance mechanism against corn borers. J Agric Food Chem (2015) 0.81
Arabidopsis UDP-sugar pyrophosphorylase: evidence for two isoforms. Plant Physiol Biochem (2008) 0.81
Knockdown of CELL DIVISION CYCLE16 reveals an inverse relationship between lateral root and nodule numbers and a link to auxin in Medicago truncatula. Plant Physiol (2009) 0.81
Identification of quantitative trait loci controlling gene expression during the innate immunity response of soybean. Plant Physiol (2011) 0.81
Legume biology: sequence to seeds. Plant Physiol (2007) 0.80
Divergent selection for ester-linked diferulates in maize pith stalk tissues. Effects on cell wall composition and degradability. Phytochemistry (2012) 0.80
Antisense inhibition of NADH glutamate synthase impairs carbon/nitrogen assimilation in nodules of alfalfa (Medicago sativa L.). Plant J (2003) 0.80
Expression of UDP-glucose dehydrogenase reduces cell-wall polysaccharide concentration and increases xylose content in alfalfa stems. Appl Biochem Biotechnol (2004) 0.78
Genomic heterogeneity and structural variation in soybean near isogenic lines. Front Plant Sci (2013) 0.78
A re-sequencing based assessment of genomic heterogeneity and fast neutron-induced deletions in a common bean cultivar. Front Plant Sci (2013) 0.78
In vitro degradation and fermentation of three dietary fiber sources by human colonic bacteria. J Agric Food Chem (2013) 0.78
Crucial roles of sucrose and microRNA399 in systemic signaling of P deficiency: a tale of two team players? Plant Signal Behav (2010) 0.77
Biodegradation of atrazine by three transgenic grasses and alfalfa expressing a modified bacterial atrazine chlorohydrolase gene. Transgenic Res (2014) 0.76
Phosphorus focus editorial. Plant Physiol (2011) 0.75
Comparison of phytotoxicity and mammalian cytotoxicity of nontrichothecene mycotoxins. J Nat Toxins (2002) 0.75
Legume focus: model species sequenced, mutagenesis approaches extended, and debut of a new model. Plant Physiol (2009) 0.75
Assaying uridine diphosphoglucose dehydrogenase in the presence of alcohol dehydrogenase. Anal Biochem (2005) 0.75