Published in BMC Plant Biol on March 03, 2010
RNA-Seq Atlas of Glycine max: a guide to the soybean transcriptome. BMC Plant Biol (2010) 3.12
A genome-wide association study of seed protein and oil content in soybean. BMC Genomics (2014) 1.73
Molecular footprints of domestication and improvement in soybean revealed by whole genome re-sequencing. BMC Genomics (2013) 1.46
Phenotypic and genomic analyses of a fast neutron mutant population resource in soybean. Plant Physiol (2011) 1.45
Integrating omic approaches for abiotic stress tolerance in soybean. Front Plant Sci (2014) 1.07
Evolutionary and comparative analyses of the soybean genome. Breed Sci (2012) 1.02
An integrative approach to genomic introgression mapping. Plant Physiol (2010) 1.01
The genetic architecture of seed composition in soybean is refined by genome-wide association scans across multiple populations. G3 (Bethesda) (2014) 0.97
Comparative evolution of photosynthetic genes in response to polyploid and nonpolyploid duplication. Plant Physiol (2011) 0.95
Landscape of genomic diversity and trait discovery in soybean. Sci Rep (2016) 0.90
Legume genomics: understanding biology through DNA and RNA sequencing. Ann Bot (2014) 0.90
Relationship between asparagine metabolism and protein concentration in soybean seed. J Exp Bot (2012) 0.89
Soybean seed proteome rebalancing. Front Plant Sci (2014) 0.89
The quest for tolerant varieties: the importance of integrating "omics" techniques to phenotyping. Front Plant Sci (2015) 0.88
Loss-of-function mutations affecting a specific Glycine max R2R3 MYB transcription factor result in brown hilum and brown seed coats. BMC Plant Biol (2011) 0.88
Detecting SNPs underlying domestication-related traits in soybean. BMC Plant Biol (2014) 0.86
Transcriptome analysis of shade-induced inhibition on leaf size in relay intercropped soybean. PLoS One (2014) 0.79
Gene divergence of homeologous regions associated with a major seed protein content QTL in soybean. Front Plant Sci (2013) 0.79
Genomic heterogeneity and structural variation in soybean near isogenic lines. Front Plant Sci (2013) 0.78
Fine mapping and RNA-Seq unravels candidate genes for a major QTL controlling multiple fiber quality traits at the T1 region in upland cotton. BMC Genomics (2016) 0.78
Development of INDEL Markers for Genetic Mapping Based on Whole Genome Resequencing in Soybean. G3 (Bethesda) (2015) 0.77
QTLomics in Soybean: A Way Forward for Translational Genomics and Breeding. Front Plant Sci (2016) 0.75
Impact of seed protein alleles from three soybean sources on seed composition and agronomic traits. Theor Appl Genet (2017) 0.75
Basic local alignment search tool. J Mol Biol (1990) 659.07
Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet (2000) 336.52
Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Res (2008) 157.44
Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics (2003) 100.88
Statistical significance for genomewide studies. Proc Natl Acad Sci U S A (2003) 88.64
Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc Natl Acad Sci U S A (2001) 68.44
The Pfam protein families database. Nucleic Acids Res (2004) 56.46
Alternative isoform regulation in human tissue transcriptomes. Nature (2008) 52.76
A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome. Science (2008) 29.99
UniProt: the Universal Protein knowledgebase. Nucleic Acids Res (2004) 29.05
Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution. Nature (2008) 18.84
Genome sequence of the palaeopolyploid soybean. Nature (2010) 17.82
A gene expression map of Arabidopsis thaliana development. Nat Genet (2005) 17.39
Robust estimators for expression analysis. Bioinformatics (2002) 8.30
CARBOHYDRATE-MODULATED GENE EXPRESSION IN PLANTS. Annu Rev Plant Physiol Plant Mol Biol (1996) 7.79
Endogenous siRNAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis. Cell (2005) 7.58
Gene discovery and annotation using LCM-454 transcriptome sequencing. Genome Res (2006) 7.10
FPC: a system for building contigs from restriction fingerprinted clones. Comput Appl Biosci (1997) 5.41
Functional annotation of the Arabidopsis genome using controlled vocabularies. Plant Physiol (2004) 5.17
A NAC Gene regulating senescence improves grain protein, zinc, and iron content in wheat. Science (2006) 5.13
Transcriptional and post-transcriptional regulation of soybean seed protein mRNA levels. Proc Natl Acad Sci U S A (1986) 4.88
Sucrose metabolism: regulatory mechanisms and pivotal roles in sugar sensing and plant development. Curr Opin Plant Biol (2004) 4.14
Regulation of gene expression during plant embryogenesis. Cell (1989) 3.95
SUGAR-INDUCED SIGNAL TRANSDUCTION IN PLANTS. Annu Rev Plant Physiol Plant Mol Biol (2000) 3.71
A gene expression atlas of the model legume Medicago truncatula. Plant J (2008) 3.38
Contrapuntal networks of gene expression during Arabidopsis seed filling. Plant Cell (2002) 3.33
wrinkled1: A novel, low-seed-oil mutant of Arabidopsis with a deficiency in the seed-specific regulation of carbohydrate metabolism. Plant Physiol (1998) 2.79
WRINKLED1 encodes an AP2/EREB domain protein involved in the control of storage compound biosynthesis in Arabidopsis. Plant J (2004) 2.76
REGULATION OF FATTY ACID SYNTHESIS. Annu Rev Plant Physiol Plant Mol Biol (1997) 2.76
Molecular physiology of legume seed development. Annu Rev Plant Biol (2005) 2.46
Control of seed mass by APETALA2. Proc Natl Acad Sci U S A (2005) 2.29
Proteins of soybean seeds: I. Isolation and characterization of the major components. Plant Physiol (1974) 2.21
Single-feature polymorphism discovery in the barley transcriptome. Genome Biol (2005) 2.15
Protein storage bodies and vacuoles Plant Cell (1999) 2.08
Transcriptome analysis of grain development in hexaploid wheat. BMC Genomics (2008) 1.92
Targeting of the Arabidopsis homomeric acetyl-coenzyme A carboxylase to plastids of rapeseeds. Plant Physiol (1997) 1.89
Detecting single-feature polymorphisms using oligonucleotide arrays and robustified projection pursuit. Bioinformatics (2005) 1.79
Combined networks regulating seed maturation. Trends Plant Sci (2007) 1.79
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
A systematic proteomic study of seed filling in soybean. Establishment of high-resolution two-dimensional reference maps, expression profiles, and an interactive proteome database. Plant Physiol (2005) 1.67
A transcriptomic analysis of superhybrid rice LYP9 and its parents. Proc Natl Acad Sci U S A (2009) 1.67
BarleyBase/PLEXdb. Methods Mol Biol (2007) 1.56
A combined proteome and transcriptome analysis of developing Medicago truncatula seeds: evidence for metabolic specialization of maternal and filial tissues. Mol Cell Proteomics (2007) 1.55
Novel long non-protein coding RNAs involved in Arabidopsis differentiation and stress responses. Genome Res (2008) 1.51
Soybean beta-conglycinin genes are clustered in several DNA regions and are regulated by transcriptional and posttranscriptional processes. Plant Cell (1989) 1.46
The cis-regulatory element CCACGTGG is involved in ABA and water-stress responses of the maize gene rab28. Plant Mol Biol (1993) 1.35
The soybean Dof-type transcription factor genes, GmDof4 and GmDof11, enhance lipid content in the seeds of transgenic Arabidopsis plants. Plant J (2007) 1.29
Changes in the activity of acetyl-CoA carboxylase during rape-seed formation. Biochem J (1983) 1.29
The role of light in soybean seed filling metabolism. Plant J (2008) 1.26
Chalcone synthase mRNA and activity are reduced in yellow soybean seed coats with dominant I alleles. Plant Physiol (1994) 1.26
Endosperm acidification and related metabolic changes in the developing barley grain. Plant Physiol (1992) 1.24
Expression and localization of phosphoenolpyruvate carboxylase in developing and germinating wheat grains. Plant Physiol (1998) 1.22
Energy status and its control on embryogenesis of legumes. Embryo photosynthesis contributes to oxygen supply and is coupled to biosynthetic fluxes. Plant Physiol (2003) 1.22
Using genomics to study legume seed development. Plant Physiol (2007) 1.22
RFLP analysis of soybean seed protein and oil content. Theor Appl Genet (1992) 1.21
Transcriptome analysis of trichothecene-induced gene expression in barley. Mol Plant Microbe Interact (2007) 1.18
Genetic control of storage oil synthesis in seeds of Arabidopsis. Plant Physiol (2004) 1.18
Gene expression profiling of M. truncatula transcription factors identifies putative regulators of grain legume seed filling. Plant Mol Biol (2008) 1.15
Distinct biphasic mRNA changes in response to Asian soybean rust infection. Mol Plant Microbe Interact (2007) 1.14
Major proteins of soybean seeds. A straightforward fractionation and their characterization. J Agric Food Chem (1977) 1.14
Gradients of lipid storage, photosynthesis and plastid differentiation in developing soybean seeds. New Phytol (2005) 1.13
Interval mapping of quantitative trait loci for reproductive, morphological, and seed traits of soybean (Glycine max L.). Theor Appl Genet (1993) 1.11
Haplotype variation in structure and expression of a gene cluster associated with a quantitative trait locus for improved yield in rice. Genome Res (2006) 1.10
RFLP loci associated with soybean seed protein and oil content across populations and locations. Theor Appl Genet (1996) 1.08
Genetic and genomic analysis of legume flowers and seeds. Curr Opin Plant Biol (2006) 1.07
Expression of storage-protein genes during soybean seed development. Planta (1981) 1.07
In-depth investigation of the soybean seed-filling proteome and comparison with a parallel study of rapeseed. Plant Physiol (2008) 1.06
Transcriptional regulation of storage protein synthesis during dicotyledon seed filling. Plant Cell Physiol (2008) 1.05
Seed-specific expression of a bacterial phosphoenolpyruvate carboxylase in Vicia narbonensis increases protein content and improves carbon economy. Plant Biotechnol J (2004) 1.01
Dynamics and regulation of plant interphase microtubules: a comparative view. Curr Opin Plant Biol (2003) 1.01
Increased fatty acid production in potato by engineering of acetyl-CoA carboxylase. Planta (2004) 1.01
Identification of differentially expressed genes in seeds of two near-isogenic Brassica napus lines with different oil content. Planta (2006) 1.00
A 22-bp fragment of the pea lectin promoter containing essential TGAC-like motifs confers seed-specific gene expression. Plant Cell (1993) 0.98
Evidence of a key role for photosynthetic oxygen release in oil storage in developing soybean seeds. New Phytol (2005) 0.97
Energy status and its control on embryogenesis of legumes: ATP distribution within Vicia faba embryos is developmentally regulated and correlated with photosynthetic capacity. Plant J (2003) 0.96
The proteome of seed development in the model legume Lotus japonicus. Plant Physiol (2009) 0.94
Numerous posttranslational modifications provide opportunities for the intricate regulation of metabolic enzymes at multiple levels. Curr Opin Plant Biol (2004) 0.92
Single-feature polymorphism discovery by computing probe affinity shape powers. BMC Genet (2009) 0.91
A preliminary linkage test with agouti and undulated mice; the fifth linkage-group. Heredity (Edinb) (1949) 0.90
Phosphoenolpyruvate carboxylase in developing seeds of Vicia faba L.: gene expression and metabolic regulation. Planta (1999) 0.90
Both antisense and sense expression of biotin carboxyl carrier protein isoform 2 inactivates the plastid acetyl-coenzyme A carboxylase in Arabidopsis thaliana. Plant J (2002) 0.89
Genome sequence of the palaeopolyploid soybean. Nature (2010) 17.82
A physical, genetic and functional sequence assembly of the barley genome. Nature (2012) 7.25
The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature (2011) 4.94
Transcriptome sequencing of malignant pleural mesothelioma tumors. Proc Natl Acad Sci U S A (2008) 4.75
Sequencing Medicago truncatula expressed sequenced tags using 454 Life Sciences technology. BMC Genomics (2006) 4.54
Legumes: importance and constraints to greater use. Plant Physiol (2003) 4.36
Development and implementation of high-throughput SNP genotyping in barley. BMC Genomics (2009) 4.23
Genome, epigenome and RNA sequences of monozygotic twins discordant for multiple sclerosis. Nature (2010) 3.90
Mining EST databases to resolve evolutionary events in major crop species. Genome (2004) 3.82
A soybean transcript map: gene distribution, haplotype and single-nucleotide polymorphism analysis. Genetics (2007) 3.54
Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers. Nat Biotechnol (2011) 3.51
Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement. Nat Biotechnol (2013) 3.41
High-throughput SNP discovery through deep resequencing of a reduced representation library to anchor and orient scaffolds in the soybean whole genome sequence. BMC Genomics (2010) 3.40
Next-generation sequencing technologies and their implications for crop genetics and breeding. Trends Biotechnol (2009) 3.36
Impacts of genetic bottlenecks on soybean genome diversity. Proc Natl Acad Sci U S A (2006) 3.23
A high-density consensus map of barley linking DArT markers to SSR, RFLP and STS loci and agricultural traits. BMC Genomics (2006) 3.18
RNA-Seq Atlas of Glycine max: a guide to the soybean transcriptome. BMC Plant Biol (2010) 3.12
A structured mutant population for forward and reverse genetics in Barley (Hordeum vulgare L.). Plant J (2004) 2.77
Small cysteine-rich peptides resembling antimicrobial peptides have been under-predicted in plants. Plant J (2007) 2.71
Sequencing the genespaces of Medicago truncatula and Lotus japonicus. Plant Physiol (2005) 2.60
High-throughput genotyping with the GoldenGate assay in the complex genome of soybean. Theor Appl Genet (2008) 2.59
Genome organization of more than 300 defensin-like genes in Arabidopsis. Plant Physiol (2005) 2.54
A new resource for cereal genomics: 22K barley GeneChip comes of age. Plant Physiol (2004) 2.33
Bridging model and crop legumes through comparative genomics. Plant Physiol (2005) 2.24
Genomic convergence analysis of schizophrenia: mRNA sequencing reveals altered synaptic vesicular transport in post-mortem cerebellum. PLoS One (2008) 2.22
Genetics and functional genomics of legume nodulation. Curr Opin Plant Biol (2006) 2.09
SoyBase, the USDA-ARS soybean genetics and genomics database. Nucleic Acids Res (2009) 2.09
Metabolic profiling of Medicago truncatula cell cultures reveals the effects of biotic and abiotic elicitors on metabolism. J Exp Bot (2004) 2.04
Artificial selection for determinate growth habit in soybean. Proc Natl Acad Sci U S A (2010) 2.02
An analysis of synteny of Arachis with Lotus and Medicago sheds new light on the structure, stability and evolution of legume genomes. BMC Genomics (2009) 2.02
Anchoring and ordering NGS contig assemblies by population sequencing (POPSEQ). Plant J (2013) 2.02
Identification and characterization of nucleotide-binding site-leucine-rich repeat genes in the model plant Medicago truncatula. Plant Physiol (2007) 2.01
Copy number variation of multiple genes at Rhg1 mediates nematode resistance in soybean. Science (2012) 2.01
ESTAP--an automated system for the analysis of EST data. Bioinformatics (2003) 2.01
Complete transcriptome of the soybean root hair cell, a single-cell model, and its alteration in response to Bradyrhizobium japonicum infection. Plant Physiol (2009) 2.00
Tall fescue EST-SSR markers with transferability across several grass species. Theor Appl Genet (2004) 1.97
Genome-wide identification of nodule-specific transcripts in the model legume Medicago truncatula. Plant Physiol (2002) 1.89
Management of High-Throughput DNA Sequencing Projects: Alpheus. J Comput Sci Syst Biol (2008) 1.85
Phylogenetic relationships among clonal groups of extraintestinal pathogenic Escherichia coli as assessed by multi-locus sequence analysis. Microbes Infect (2006) 1.73
A genome-wide association study of seed protein and oil content in soybean. BMC Genomics (2014) 1.73
Highly variable patterns of linkage disequilibrium in multiple soybean populations. Genetics (2007) 1.71
Computational identification and characterization of novel genes from legumes. Plant Physiol (2004) 1.67
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
Gene duplication and paleopolyploidy in soybean and the implications for whole genome sequencing. BMC Genomics (2007) 1.66
Phosphorus stress in common bean: root transcript and metabolic responses. Plant Physiol (2007) 1.65
INTERMEDIUM-C, a modifier of lateral spikelet fertility in barley, is an ortholog of the maize domestication gene TEOSINTE BRANCHED 1. Nat Genet (2011) 1.63
Sequencing and analysis of common bean ESTs. Building a foundation for functional genomics. Plant Physiol (2005) 1.61
Molecular evolution of lysin motif-type receptor-like kinases in plants. Plant Physiol (2007) 1.59
Three sequenced legume genomes and many crop species: rich opportunities for translational genomics. Plant Physiol (2009) 1.57
Combining genome-wide association mapping and transcriptional networks to identify novel genes controlling glucosinolates in Arabidopsis thaliana. PLoS Biol (2011) 1.54
Microsatellite discovery from BAC end sequences and genetic mapping to anchor the soybean physical and genetic maps. Genome (2008) 1.53
Legumes as a model plant family. Genomics for food and feed report of the Cross-Legume Advances Through Genomics Conference. Plant Physiol (2005) 1.52
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
Identification and analyses of candidate genes for rpp4-mediated resistance to Asian soybean rust in soybean. Plant Physiol (2009) 1.51
Signaling of phosphorus deficiency-induced gene expression in white lupin requires sugar and phloem transport. Plant J (2005) 1.50
Longitudinal investigation of the age-related bacterial diversity in the feces of commercial pigs. Vet Microbiol (2011) 1.48
Structural variants in the soybean genome localize to clusters of biotic stress-response genes. Plant Physiol (2012) 1.48
Phylogeny and genomic organization of the TIR and non-tIR NBS-LRR resistance gene family in Medicago truncatula. Mol Plant Microbe Interact (2002) 1.47
Transcriptome analysis of the barley-Fusarium graminearum interaction. Mol Plant Microbe Interact (2006) 1.46
Whole-genome nucleotide diversity, recombination, and linkage disequilibrium in the model legume Medicago truncatula. Proc Natl Acad Sci U S A (2011) 1.46
The feasibility of using high resolution genome sequencing of influenza A viruses to detect mixed infections and quasispecies. PLoS One (2009) 1.46
Evolutionary conservation, diversity and specificity of LTR-retrotransposons in flowering plants: insights from genome-wide analysis and multi-specific comparison. Plant J (2010) 1.46
Analysis of BAC-end sequences (BESs) and development of BES-SSR markers for genetic mapping and hybrid purity assessment in pigeonpea (Cajanus spp.). BMC Plant Biol (2011) 1.45
Phenotypic and genomic analyses of a fast neutron mutant population resource in soybean. Plant Physiol (2011) 1.45