Published in BMC Genomics on October 21, 2013
Cytokinin-dependent secondary growth determines root biomass in radish (Raphanus sativus L.). J Exp Bot (2015) 0.76
Identification, expression, and functional analysis of CLE genes in radish (Raphanus sativus L.) storage root. BMC Plant Biol (2016) 0.75
Genome-wide characterization of the WRKY gene family in radish (Raphanus sativus L.) reveals its critical functions under different abiotic stresses. Plant Cell Rep (2017) 0.75
MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol (2011) 220.97
MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res (2004) 168.89
PAML 4: phylogenetic analysis by maximum likelihood. Mol Biol Evol (2007) 45.68
OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res (2003) 33.03
GO::TermFinder--open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes. Bioinformatics (2004) 20.23
Complementary DNA sequencing: expressed sequence tags and human genome project. Science (1991) 19.42
The Arabidopsis Information Resource (TAIR): gene structure and function annotation. Nucleic Acids Res (2007) 14.24
A general approach to single-nucleotide polymorphism discovery. Nat Genet (1999) 13.39
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics (2009) 9.81
ESTScan: a program for detecting, evaluating, and reconstructing potential coding regions in EST sequences. Proc Int Conf Intell Syst Mol Biol (1999) 9.18
Evolution of the angiosperms: calibrating the family tree. Proc Biol Sci (2001) 8.75
The genome of the mesopolyploid crop species Brassica rapa. Nat Genet (2011) 8.23
Ancestral polyploidy in seed plants and angiosperms. Nature (2011) 7.00
The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus). Nature (2008) 5.54
Rates of nucleotide substitution in angiosperm mitochondrial DNA sequences and dates of divergence between Brassica and other angiosperm lineages. J Mol Evol (1999) 4.37
Phylogenetic analysis in molecular evolutionary genetics. Annu Rev Genet (1996) 3.39
Molecular systematics of the Brassicaceae: evidence from coding plastidic matK and nuclear Chs sequences. Am J Bot (2001) 2.94
Fossil evidence and phylogeny: the age of major angiosperm clades based on mesofossil and macrofossil evidence from Cretaceous deposits. Am J Bot (2004) 2.83
iAssembler: a package for de novo assembly of Roche-454/Sanger transcriptome sequences. BMC Bioinformatics (2011) 2.02
PGDD: a database of gene and genome duplication in plants. Nucleic Acids Res (2012) 1.90
The gibberellin biosynthetic genes AtGA20ox1 and AtGA20ox2 act, partially redundantly, to promote growth and development throughout the Arabidopsis life cycle. Plant J (2007) 1.74
Reconstruction of monocotelydoneous proto-chromosomes reveals faster evolution in plants than in animals. Proc Natl Acad Sci U S A (2009) 1.71
Ancestral grass karyotype reconstruction unravels new mechanisms of genome shuffling as a source of plant evolution. Genome Res (2010) 1.55
Surface structure and properties of plant seed oil bodies. J Cell Biol (1992) 1.54
SNP-array reveals genome-wide patterns of geographical and potential adaptive divergence across the natural range of Atlantic salmon (Salmo salar). Mol Ecol (2012) 1.51
Characterization of transcriptome dynamics during watermelon fruit development: sequencing, assembly, annotation and gene expression profiles. BMC Genomics (2011) 1.28
Endogenous Gibberellins and Shoot Growth and Development in Brassica napus. Plant Physiol (1989) 1.22
A pipeline for high throughput detection and mapping of SNPs from EST databases. Mol Breed (2010) 1.20
Analysis of expressed sequence tags generated from full-length enriched cDNA libraries of melon. BMC Genomics (2011) 1.13
Transcriptome profiling of radish (Raphanus sativus L.) root and identification of genes involved in response to Lead (Pb) stress with next generation sequencing. PLoS One (2013) 1.12
EST generation and analyses towards identifying female gametophyte-specific genes in Zea mays L. Planta (2006) 1.12
An EST-SSR linkage map of Raphanus sativus and comparative genomics of the Brassicaceae. DNA Res (2011) 1.08
Extensive chromosome homoeology among Brassiceae species were revealed by comparative genetic mapping with high-density EST-based SNP markers in radish (Raphanus sativus L.). DNA Res (2011) 1.01
Ancient genome duplications during the evolution of kiwifruit (Actinidia) and related Ericales. Ann Bot (2010) 1.01
Transcriptome analysis of the roots at early and late seedling stages using Illumina paired-end sequencing and development of EST-SSR markers in radish. Plant Cell Rep (2012) 1.00
Molecular mapping in oil radish (Raphanus sativus L.) and QTL analysis of resistance against beet cyst nematode (Heterodera schachtii). Theor Appl Genet (2008) 0.97
SNP discovery with EST and NextGen sequencing in switchgrass (Panicum virgatum L.). PLoS One (2012) 0.95
Dot-blot-SNP analysis for practical plant breeding and cultivar identification in rice. Theor Appl Genet (2006) 0.93
Genetic linkage map construction and QTL mapping of cadmium accumulation in radish (Raphanus sativus L.). Theor Appl Genet (2012) 0.89
RadishBase: a database for genomics and genetics of radish. Plant Cell Physiol (2012) 0.89
Oil body biogenesis during Brassica napus embryogenesis. J Integr Plant Biol (2009) 0.87
EST analysis and annotation of transcripts derived from a trichome-specific cDNA library from Salvia fruticosa. Plant Cell Rep (2010) 0.84
Generation of an expressed sequence tag (EST) library from salt-stressed roots of Jatropha curcas for identification of abiotic stress-responsive genes. Plant Biol (Stuttg) (2012) 0.82
An elm EST database for identifying leaf beetle egg-induced defense genes. BMC Genomics (2012) 0.80
Multiple origins of cultivated radishes as evidenced by a comparison of the structural variations in mitochondrial DNA of Raphanus. Genome (2003) 0.78
Roll-to-roll production of 30-inch graphene films for transparent electrodes. Nat Nanotechnol (2010) 12.59
The genome of the mesopolyploid crop species Brassica rapa. Nat Genet (2011) 8.23
The genome of the cucumber, Cucumis sativus L. Nat Genet (2009) 8.19
Rational design and characterization of a Rac GTPase-specific small molecule inhibitor. Proc Natl Acad Sci U S A (2004) 7.24
Standardizing global gene expression analysis between laboratories and across platforms. Nat Methods (2005) 6.23
'United States Renal Data System 2011 Annual Data Report: Atlas of chronic kidney disease & end-stage renal disease in the United States. Am J Kidney Dis (2012) 5.70
Microenvironment determines lineage fate in a human model of MLL-AF9 leukemia. Cancer Cell (2008) 3.79
Rho GTPase-activating proteins in cell regulation. Trends Cell Biol (2003) 3.44
Excerpts from the US Renal Data System 2009 Annual Data Report. Am J Kidney Dis (2010) 3.11
Shearwave dispersion ultrasound vibrometry (SDUV) for measuring tissue elasticity and viscosity. IEEE Trans Ultrason Ferroelectr Freq Control (2009) 3.00
Compact biocompatible quantum dots functionalized for cellular imaging. J Am Chem Soc (2008) 2.92
US Renal Data System 2010 Annual Data Report. Am J Kidney Dis (2011) 2.90
High-throughput illumina strand-specific RNA sequencing library preparation. Cold Spring Harb Protoc (2011) 2.72
Deep sequencing of small RNAs in tomato for virus and viroid identification and strain differentiation. PLoS One (2012) 2.70
Monovalent, reduced-size quantum dots for imaging receptors on living cells. Nat Methods (2008) 2.68
Enamines as novel antibacterials and their structure-activity relationships. Eur J Med Chem (2007) 2.65
Anterior pedicle screw fixation of C2: an anatomic analysis of axis morphology and simulated surgical fixation. Eur Spine J (2014) 2.64
Rac GTPases differentially integrate signals regulating hematopoietic stem cell localization. Nat Med (2005) 2.63
A canonical to non-canonical Wnt signalling switch in haematopoietic stem-cell ageing. Nature (2013) 2.62
Cdc42 activity regulates hematopoietic stem cell aging and rejuvenation. Cell Stem Cell (2012) 2.60
A cost-effective method for Illumina small RNA-Seq library preparation using T4 RNA ligase 1 adenylated adapters. Plant Methods (2012) 2.46
Single-base resolution methylomes of tomato fruit development reveal epigenome modifications associated with ripening. Nat Biotechnol (2013) 2.43
ESTs, cDNA microarrays, and gene expression profiling: tools for dissecting plant physiology and development. Plant J (2004) 2.42
The draft genome of watermelon (Citrullus lanatus) and resequencing of 20 diverse accessions. Nat Genet (2012) 2.33
T lymphocytes potentiate endogenous neuroprotective inflammation in a mouse model of ALS. Proc Natl Acad Sci U S A (2008) 2.26
Adipose mitochondrial biogenesis is suppressed in db/db and high-fat diet-fed mice and improved by rosiglitazone. Diabetes (2007) 2.23
Excerpts from the United States Renal Data System 2006 Annual Data Report. Am J Kidney Dis (2007) 2.16
A Rac-cGMP signaling pathway. Cell (2007) 2.16
United States Renal Data System 2008 Annual Data Report. Am J Kidney Dis (2009) 2.14
An essential role for Rac1 in endothelial cell function and vascular development. FASEB J (2008) 2.09
Signaling and cytoskeletal requirements in erythroblast enucleation. Blood (2012) 2.05
iAssembler: a package for de novo assembly of Roche-454/Sanger transcriptome sequences. BMC Bioinformatics (2011) 2.02
Development of a EST dataset and characterization of EST-SSRs in a traditional Chinese medicinal plant, Epimedium sagittatum (Sieb. Et Zucc.) Maxim. BMC Genomics (2010) 2.01
Excerpts from the United States Renal Data System 2007 annual data report. Am J Kidney Dis (2008) 2.01
Gene targeting of Cdc42 and Cdc42GAP affirms the critical involvement of Cdc42 in filopodia induction, directed migration, and proliferation in primary mouse embryonic fibroblasts. Mol Biol Cell (2006) 1.96
Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics (2010) 1.88
Tissue- and cell-type specific transcriptome profiling of expanding tomato fruit provides insights into metabolic and regulatory specialization and cuticle formation. Plant Cell (2011) 1.88
VKORC1 haplotypes are associated with arterial vascular diseases (stroke, coronary heart disease, and aortic dissection). Circulation (2006) 1.86
Rho GTPase Cdc42 coordinates hematopoietic stem cell quiescence and niche interaction in the bone marrow. Proc Natl Acad Sci U S A (2007) 1.74
Transjugular intrahepatic portosystemic shunt versus endoscopic therapy in the secondary prophylaxis of variceal rebleeding in cirrhotic patients: meta-analysis update. J Clin Gastroenterol (2008) 1.74
Draft genome of the kiwifruit Actinidia chinensis. Nat Commun (2013) 1.72
Rac guanosine triphosphatases represent integrating molecular therapeutic targets for BCR-ABL-induced myeloproliferative disease. Cancer Cell (2007) 1.72
CKD in the United States: Kidney Early Evaluation Program (KEEP) and National Health and Nutrition Examination Survey (NHANES) 1999-2004. Am J Kidney Dis (2008) 1.71
Cdc42 regulates bone modeling and remodeling in mice by modulating RANKL/M-CSF signaling and osteoclast polarization. J Clin Invest (2010) 1.71
Decoding of polymodal sensory stimuli by postsynaptic glutamate receptors in C. elegans. Neuron (2002) 1.70
Genetic deletion of Rac1 GTPase reveals its critical role in actin stress fiber formation and focal adhesion complex assembly. J Biol Chem (2006) 1.66
Expression of seven main Rho family members in gastric carcinoma. Biochem Biophys Res Commun (2004) 1.63
Cdc42 coordinates proliferation, polarity, migration, and differentiation of small intestinal epithelial cells in mice. Gastroenterology (2013) 1.62
Genome sequence of Brucella abortus vaccine strain S19 compared to virulent strains yields candidate virulence genes. PLoS One (2008) 1.57
Interplay of mevalonate and Hippo pathways regulates RHAMM transcription via YAP to modulate breast cancer cell motility. Proc Natl Acad Sci U S A (2013) 1.57
Localization of Rac2 via the C terminus and aspartic acid 150 specifies superoxide generation, actin polarity and chemotaxis in neutrophils. Nat Immunol (2004) 1.56
Impact of intestinal colonization and invasion on the Entamoeba histolytica transcriptome. Mol Biochem Parasitol (2006) 1.55
miR-137 targets Cdc42 expression, induces cell cycle G1 arrest and inhibits invasion in colorectal cancer cells. Int J Cancer (2011) 1.53
Cdc42 deficiency causes Sonic hedgehog-independent holoprosencephaly. Proc Natl Acad Sci U S A (2006) 1.53
Lymphoproliferative disorders after adult kidney transplant: epidemiology and comparison of registry report with claims-based diagnoses. Am J Kidney Dis (2011) 1.53
ARAP1: a point of convergence for Arf and Rho signaling. Mol Cell (2002) 1.53
Homo- and hetero-oligomerization of PDZ-RhoGEF, LARG and p115RhoGEF by their C-terminal region regulates their in vivo Rho GEF activity and transforming potential. Oncogene (2004) 1.52
Genetic deletion of Cdc42GAP reveals a role of Cdc42 in erythropoiesis and hematopoietic stem/progenitor cell survival, adhesion, and engraftment. Blood (2005) 1.52
Systems biology of tomato fruit development: combined transcript, protein, and metabolite analysis of tomato transcription factor (nor, rin) and ethylene receptor (Nr) mutants reveals novel regulatory interactions. Plant Physiol (2011) 1.51
Rac1 is essential in cocaine-induced structural plasticity of nucleus accumbens neurons. Nat Neurosci (2012) 1.50
Cdc42 in oncogenic transformation, invasion, and tumorigenesis. Cell Signal (2011) 1.50
p19Arf-p53 tumor suppressor pathway regulates cell motility by suppression of phosphoinositide 3-kinase and Rac1 GTPase activities. J Biol Chem (2003) 1.49
Two distinct roles of mitogen-activated protein kinases in platelets and a novel Rac1-MAPK-dependent integrin outside-in retractile signaling pathway. Blood (2008) 1.47
A role of STAT3 in Rho GTPase-regulated cell migration and proliferation. J Biol Chem (2005) 1.47
The Kidney Early Evaluation Program (KEEP): program design and demographic characteristics of the population. Am J Kidney Dis (2008) 1.46
Plant MetGenMAP: an integrative analysis system for plant systems biology. Plant Physiol (2009) 1.44
Transcriptional profiles of drought-responsive genes in modulating transcription signal transduction, and biochemical pathways in tomato. J Exp Bot (2010) 1.42
Rac GTPases regulate the morphology and deformability of the erythrocyte cytoskeleton. Blood (2006) 1.41
Complete genome sequence of a new tobamovirus naturally infecting tomatoes in Mexico. Genome Announc (2013) 1.41
Mitochondrial DAMPs increase endothelial permeability through neutrophil dependent and independent pathways. PLoS One (2013) 1.40
The linkage disequilibrium maps of three human chromosomes across four populations reflect their demographic history and a common underlying recombination pattern. Genome Res (2005) 1.40
Selective targeting of gold nanorods at the mitochondria of cancer cells: implications for cancer therapy. Nano Lett (2010) 1.40
Cell type-specific functions of Rho GTPases revealed by gene targeting in mice. Trends Cell Biol (2006) 1.39
Safety of infliximab therapy in rheumatoid arthritis patients with previous exposure to hepatitis B virus. Int J Rheum Dis (2013) 1.39
Hypertension and CKD: Kidney Early Evaluation Program (KEEP) and National Health and Nutrition Examination Survey (NHANES), 1999-2004. Am J Kidney Dis (2008) 1.38
Rho GTPases in hematopoiesis and hemopathies. Blood (2009) 1.37
Rac GTPase isoforms Rac1 and Rac2 play a redundant and crucial role in T-cell development. Blood (2008) 1.37
Electrochemical delamination of CVD-grown graphene film: toward the recyclable use of copper catalyst. ACS Nano (2011) 1.36
A randomized study of transendocardial injection of autologous bone marrow mononuclear cells and cell function analysis in ischemic heart failure (FOCUS-HF). Am Heart J (2011) 1.35
Antagonistic basic helix-loop-helix/bZIP transcription factors form transcriptional modules that integrate light and reactive oxygen species signaling in Arabidopsis. Plant Cell (2013) 1.35
Polymorphisms of KDR gene are associated with coronary heart disease. J Am Coll Cardiol (2007) 1.35
A novel strategy for specifically down-regulating individual Rho GTPase activity in tumor cells. J Biol Chem (2003) 1.35
A genomic variation map provides insights into the genetic basis of cucumber domestication and diversity. Nat Genet (2013) 1.34
Increased hematopoietic stem cell mobilization in aged mice. Blood (2006) 1.34
Rac1 and Rac2 GTPases are necessary for early erythropoietic expansion in the bone marrow but not in the spleen. Haematologica (2010) 1.34
Novel role for Na,K-ATPase in phosphatidylinositol 3-kinase signaling and suppression of cell motility. Mol Biol Cell (2004) 1.33
Regeneration of Drosophila sensory neuron axons and dendrites is regulated by the Akt pathway involving Pten and microRNA bantam. Genes Dev (2012) 1.33