Published in Genome Biol on November 18, 2003
A conifer genomics resource of 200,000 spruce (Picea spp.) ESTs and 6,464 high-quality, sequence-finished full-length cDNAs for Sitka spruce (Picea sitchensis). BMC Genomics (2008) 1.55
Generation, annotation, analysis and database integration of 16,500 white spruce EST clusters. BMC Genomics (2005) 1.54
ESTimating plant phylogeny: lessons from partitioning. BMC Evol Biol (2006) 1.24
Identification of genic moss SSR markers and a comparative analysis of twenty-four algal and plant gene indices reveal species-specific rather than group-specific characteristics of microsatellites. BMC Plant Biol (2006) 1.14
Analysis of the floral transcriptome uncovers new regulators of organ determination and gene families related to flower organ differentiation in Gerbera hybrida (Asteraceae). Genome Res (2005) 1.10
Functional analysis and comparative genomics of expressed sequence tags from the lycophyte Selaginella moellendorffii. BMC Genomics (2005) 1.04
The cyanobacteria derived toxin Beta-N-methylamino-L-alanine and amyotrophic lateral sclerosis. Toxins (Basel) (2010) 0.98
EST analysis in Ginkgo biloba: an assessment of conserved developmental regulators and gymnosperm specific genes. BMC Genomics (2005) 0.98
Phylogeny of the cycads based on multiple single-copy nuclear genes: congruence of concatenated parsimony, likelihood and species tree inference methods. Ann Bot (2013) 0.88
An expressed sequence tag (EST) library from developing fruits of an Hawaiian endemic mint (Stenogyne rugosa, Lamiaceae): characterization and microsatellite markers. BMC Plant Biol (2006) 0.86
Structure-function relationships in plant phenylpropanoid biosynthesis. Curr Opin Plant Biol (2005) 0.85
Free and glycosylated sterol bioaccumulation in developing Cycas micronesica seeds. Food Chem (2009) 0.84
Revisiting the evolutionary history and roles of protein phosphatases with Kelch-like domains in plants. Plant Physiol (2014) 0.79
Novel tools for an old lineage: Population genomics for cycads. Commun Integr Biol (2011) 0.75
Evidence for an ancient whole genome duplication in the cycad lineage. PLoS One (2017) 0.75
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Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res (1998) 106.16
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Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature (2000) 70.33
A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science (2002) 42.78
A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science (2002) 21.26
The CONSTANS gene of Arabidopsis promotes flowering and encodes a protein showing similarities to zinc finger transcription factors. Cell (1995) 7.76
CONSTANS mediates between the circadian clock and the control of flowering in Arabidopsis. Nature (2001) 6.94
AGO1 defines a novel locus of Arabidopsis controlling leaf development. EMBO J (1998) 5.62
Establishment of polarity in lateral organs of plants. Curr Biol (2001) 3.22
COP9: a new genetic locus involved in light-regulated development and gene expression in arabidopsis. Plant Cell (1992) 3.20
Distinct mechanisms promote polarity establishment in carpels of Arabidopsis. Cell (1999) 2.83
Plant development: regulation by protein degradation. Science (2002) 2.64
Guam amyotrophic lateral sclerosis-parkinsonism-dementia linked to a plant excitant neurotoxin. Science (1987) 2.48
INNER NO OUTER regulates abaxial- adaxial patterning in Arabidopsis ovules. Genes Dev (1999) 2.05
Glutamate-receptor genes in plants. Nature (1998) 1.86
Unraveling plant metabolism by EST analysis. Curr Opin Plant Biol (2000) 1.80
COP9 signalosome revisited: a novel mediator of protein degradation. Trends Cell Biol (2001) 1.80
Apparent homology of expressed genes from wood-forming tissues of loblolly pine (Pinus taeda L.) with Arabidopsis thaliana. Proc Natl Acad Sci U S A (2003) 1.75
The identity of plant glutamate receptors. Science (2001) 1.53
Homeoboxes in plant development. Biochim Biophys Acta (1998) 1.53
Cycads: evolutionary innovations and the role of plant-derived neurotoxins. Trends Plant Sci (2003) 1.43
Functional genomics and cell wall biosynthesis in loblolly pine. Plant Mol Biol (2001) 1.34
Phylogenetic and expression analysis of the glutamate-receptor-like gene family in Arabidopsis thaliana. Mol Biol Evol (2002) 1.33
Sputnik: a database platform for comparative plant genomics. Nucleic Acids Res (2003) 1.32
Plant systematics in the age of genomics. Plant Physiol (2001) 1.26
Phylogeny of seed plants based on evidence from eight genes. Am J Bot (2002) 1.19
Isolation of various forms of sterol beta-D-glucoside from the seed of Cycas circinalis: neurotoxicity and implications for ALS-parkinsonism dementia complex. J Neurochem (2002) 1.13
How can we deliver the large plant genomes? Strategies and perspectives. Curr Opin Plant Biol (2002) 1.10
Arabidopsis mutants resistant to S(+)-beta-methyl-alpha, beta-diaminopropionic acid, a cycad-derived glutamate receptor agonist. Plant Physiol (2000) 1.06
Molecular phylogeny of cycads inferred from rbcL sequences. Naturwissenschaften (2002) 1.04
Cysteine synthase (O-acetylserine (thiol) lyase) substrate specificities classify the mitochondrial isoform as a cyanoalanine synthase. J Exp Bot (2000) 1.01
The COP9 signalosome. Curr Biol (2002) 0.99
Weaving the complex web of signal transduction. Plant Physiol (2001) 0.97
An appraisal of the neurotoxicity of cycad and the etiology of amyotrophic lateral sclerosis on Guam. Fed Proc (1972) 0.96
The cycad neurotoxic amino acid, beta-N-methylamino-L-alanine (BMAA), elevates intracellular calcium levels in dissociated rat brain cells. J Ethnopharmacol (2002) 0.92
Developmental and light-regulated expression of individual members of the light-harvesting complex b gene family in Pinus palustris. Plant Physiol (1996) 0.86
Quantification of the putative neurotoxin 2-amino-3-(methylamino)propanoic acid (BMAA) in cycadales: analysis of the seeds of some members of the family Cycadaceae. J Anal Toxicol (1990) 0.86
The first plant genome. Cell (2001) 0.83
Modulation of cyanoalanine synthase and O-acetylserine (thiol) lyases A and B activity by beta-substituted alanyl and anion inhibitors. J Exp Bot (2002) 0.79
Cycads: fossil evidence of late paleozoic origin. Science (1969) 0.79
The Sorghum bicolor genome and the diversification of grasses. Nature (2009) 14.62
A physical, genetic and functional sequence assembly of the barley genome. Nature (2012) 7.25
Analysis of the bread wheat genome using whole-genome shotgun sequencing. Nature (2012) 5.67
The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature (2011) 4.94
The Arabidopsis lyrata genome sequence and the basis of rapid genome size change. Nat Genet (2011) 4.65
Comparative analysis of the receptor-like kinase family in Arabidopsis and rice. Plant Cell (2004) 4.59
The Rice Annotation Project Database (RAP-DB): 2008 update. Nucleic Acids Res (2007) 4.23
MIPS Arabidopsis thaliana Database (MAtDB): an integrated biological knowledge resource based on the first complete plant genome. Nucleic Acids Res (2002) 4.05
Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas. Science (2009) 4.05
Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature (2012) 4.00
Aegilops tauschii draft genome sequence reveals a gene repertoire for wheat adaptation. Nature (2013) 3.40
Sequence composition and genome organization of maize. Proc Natl Acad Sci U S A (2004) 3.22
Cell-specific nitrogen responses mediate developmental plasticity. Proc Natl Acad Sci U S A (2008) 3.17
Legume genome evolution viewed through the Medicago truncatula and Lotus japonicus genomes. Proc Natl Acad Sci U S A (2006) 2.61
Taking the first steps towards a standard for reporting on phylogenies: Minimum Information About a Phylogenetic Analysis (MIAPA). OMICS (2006) 2.57
Functional identification of tumor-suppressor genes through an in vivo RNA interference screen in a mouse lymphoma model. Cancer Cell (2009) 2.54
Structure and architecture of the maize genome. Plant Physiol (2005) 2.52
Qualitative network models and genome-wide expression data define carbon/nitrogen-responsive molecular machines in Arabidopsis. Genome Biol (2007) 2.45
Horizontal transfer of an adaptive chimeric photoreceptor from bryophytes to ferns. Proc Natl Acad Sci U S A (2014) 2.42
Exon discovery by genomic sequence alignment. Bioinformatics (2002) 2.38
Systems approach identifies an organic nitrogen-responsive gene network that is regulated by the master clock control gene CCA1. Proc Natl Acad Sci U S A (2008) 2.17
Nitrate-responsive miR393/AFB3 regulatory module controls root system architecture in Arabidopsis thaliana. Proc Natl Acad Sci U S A (2010) 2.03
Anchoring and ordering NGS contig assemblies by population sequencing (POPSEQ). Plant J (2013) 2.02
Frequent gene movement and pseudogene evolution is common to the large and complex genomes of wheat, barley, and their relatives. Plant Cell (2011) 1.98
MIPS Arabidopsis thaliana Database (MAtDB): an integrated biological knowledge resource for plant genomics. Nucleic Acids Res (2004) 1.97
Transcriptional similarities, dissimilarities, and conservation of cis-elements in duplicated genes of Arabidopsis. Plant Physiol (2004) 1.96
Uneven chromosome contraction and expansion in the maize genome. Genome Res (2006) 1.96
OrthologID: automation of genome-scale ortholog identification within a parsimony framework. Bioinformatics (2006) 1.90
VirtualPlant: a software platform to support systems biology research. Plant Physiol (2009) 1.88
START lipid/sterol-binding domains are amplified in plants and are predominantly associated with homeodomain transcription factors. Genome Biol (2004) 1.88
Morphology of Hydatellaceae, an anomalous aquatic family recently recognized as an early-divergent angiosperm lineage. Am J Bot (2007) 1.82
A genome triplication associated with early diversification of the core eudicots. Genome Biol (2012) 1.80
Ontologies as integrative tools for plant science. Am J Bot (2012) 1.71
A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor. Proc Natl Acad Sci U S A (2013) 1.70
Specification of adaxial cell fate during maize leaf development. Development (2004) 1.69
The plant ontology as a tool for comparative plant anatomy and genomic analyses. Plant Cell Physiol (2012) 1.65
Gene selection from microarray data for cancer classification--a machine learning approach. Comput Biol Chem (2005) 1.64
De novo 454 sequencing of barcoded BAC pools for comprehensive gene survey and genome analysis in the complex genome of barley. BMC Genomics (2009) 1.61
Next-generation sequencing and syntenic integration of flow-sorted arms of wheat chromosome 4A exposes the chromosome structure and gene content. Plant J (2011) 1.60
MIPSPlantsDB--plant database resource for integrative and comparative plant genome research. Nucleic Acids Res (2007) 1.58
Nitrate signaling: adaptation to fluctuating environments. Curr Opin Plant Biol (2010) 1.57
Genome-wide patterns of carbon and nitrogen regulation of gene expression validate the combined carbon and nitrogen (CN)-signaling hypothesis in plants. Genome Biol (2004) 1.53
Quantification of transcription factor expression from Arabidopsis images. Bioinformatics (2006) 1.50
Nitrogen economics of root foraging: transitive closure of the nitrate-cytokinin relay and distinct systemic signaling for N supply vs. demand. Proc Natl Acad Sci U S A (2011) 1.46
A functional phylogenomic view of the seed plants. PLoS Genet (2011) 1.44
Genome-wide investigation of light and carbon signaling interactions in Arabidopsis. Genome Biol (2004) 1.44
Cycads: evolutionary innovations and the role of plant-derived neurotoxins. Trends Plant Sci (2003) 1.43
Characterization of the maize endosperm transcriptome and its comparison to the rice genome. Genome Res (2004) 1.39
Selfish supernumerary chromosome reveals its origin as a mosaic of host genome and organellar sequences. Proc Natl Acad Sci U S A (2012) 1.37
Predictive network modeling of the high-resolution dynamic plant transcriptome in response to nitrate. Genome Biol (2010) 1.34
Evaluation and classification of RING-finger domains encoded by the Arabidopsis genome. Genome Biol (2002) 1.34
Barley whole exome capture: a tool for genomic research in the genus Hordeum and beyond. Plant J (2013) 1.34
Phylogenetic and expression analysis of the glutamate-receptor-like gene family in Arabidopsis thaliana. Mol Biol Evol (2002) 1.33
Sputnik: a database platform for comparative plant genomics. Nucleic Acids Res (2003) 1.32
An improved genome release (version Mt4.0) for the model legume Medicago truncatula. BMC Genomics (2014) 1.32
Light- and carbon-signaling pathways. Modeling circuits of interactions. Plant Physiol (2003) 1.29
Overexpression of the ASN1 gene enhances nitrogen status in seeds of Arabidopsis. Plant Physiol (2003) 1.28
ESTimating plant phylogeny: lessons from partitioning. BMC Evol Biol (2006) 1.24
Impact of natural genetic variation on the transcriptome of autotetraploid Arabidopsis thaliana. Proc Natl Acad Sci U S A (2010) 1.20
Overexpression of cytosolic glutamine synthetase. Relation to nitrogen, light, and photorespiration. Plant Physiol (2002) 1.19
Large-scale cis-element detection by analysis of correlated expression and sequence conservation between Arabidopsis and Brassica oleracea. Plant Physiol (2006) 1.19
MIPS: curated databases and comprehensive secondary data resources in 2010. Nucleic Acids Res (2010) 1.19
A framework integrating plant growth with hormones and nutrients. Trends Plant Sci (2011) 1.19
A sequence-ready physical map of barley anchored genetically by two million single-nucleotide polymorphisms. Plant Physiol (2013) 1.17
Insights into the genomic nitrate response using genetics and the Sungear Software System. J Exp Bot (2007) 1.16
Transcriptome-mining for single-copy nuclear markers in ferns. PLoS One (2013) 1.12
Systems biology for the virtual plant. Plant Physiol (2005) 1.11
A microfluidic device and computational platform for high-throughput live imaging of gene expression. Nat Methods (2012) 1.11
Distribution, functional impact, and origin mechanisms of copy number variation in the barley genome. Genome Biol (2013) 1.10
Comparative ovule and megagametophyte development in Hydatellaceae and water lilies reveal a mosaic of features among the earliest angiosperms. Ann Bot (2008) 1.10
Molecular characterisation of the STRUBBELIG-RECEPTOR FAMILY of genes encoding putative leucine-rich repeat receptor-like kinases in Arabidopsis thaliana. BMC Plant Biol (2007) 1.10
Significant sequence similarities in promoters and precursors of Arabidopsis thaliana non-conserved microRNAs. Bioinformatics (2006) 1.06
Correlation of ASN2 gene expression with ammonium metabolism in Arabidopsis. Plant Physiol (2003) 1.06
The impact of outgroup choice and missing data on major seed plant phylogenetics using genome-wide EST data. PLoS One (2009) 1.06
MOsDB: an integrated information resource for rice genomics. Nucleic Acids Res (2003) 1.05
Identification of a 150 bp cis-acting element of the AtNRT2.1 promoter involved in the regulation of gene expression by the N and C status of the plant. Plant Cell Environ (2007) 1.04
The perennial ryegrass GenomeZipper: targeted use of genome resources for comparative grass genomics. Plant Physiol (2012) 1.04
Arabidopsis glt1-T mutant defines a role for NADH-GOGAT in the non-photorespiratory ammonium assimilatory pathway. Plant J (2002) 1.04
Next-generation phenomics for the Tree of Life. PLoS Curr (2013) 1.03
A divergent transcription factor TFIIB in trypanosomes is required for RNA polymerase II-dependent spliced leader RNA transcription and cell viability. Eukaryot Cell (2006) 1.02
An integrated genetic, genomic and systems approach defines gene networks regulated by the interaction of light and carbon signaling pathways in Arabidopsis. BMC Syst Biol (2008) 1.02
Functional characterization of two clusters of Brachypodium distachyon UDP-glycosyltransferases encoding putative deoxynivalenol detoxification genes. Mol Plant Microbe Interact (2013) 1.01
A system biology approach highlights a hormonal enhancer effect on regulation of genes in a nitrate responsive "biomodule". BMC Syst Biol (2009) 1.01
A systems approach uncovers restrictions for signal interactions regulating genome-wide responses to nutritional cues in Arabidopsis. PLoS Comput Biol (2009) 1.00
Reticulate evolution of the rye genome. Plant Cell (2013) 1.00
Integration of responses within and across Arabidopsis natural accessions uncovers loci controlling root systems architecture. Proc Natl Acad Sci U S A (2013) 0.99
EST analysis in Ginkgo biloba: an assessment of conserved developmental regulators and gymnosperm specific genes. BMC Genomics (2005) 0.98
Achieving the in silico plant. Systems biology and the future of plant biological research. Plant Physiol (2003) 0.97