Published in PLoS Genet on November 20, 2009
A large maize (Zea mays L.) SNP genotyping array: development and germplasm genotyping, and genetic mapping to compare with the B73 reference genome. PLoS One (2011) 3.30
Landscape of next-generation sequencing technologies. Anal Chem (2011) 2.58
Sequencing and automated whole-genome optical mapping of the genome of a domestic goat (Capra hircus). Nat Biotechnol (2012) 2.45
A single molecule scaffold for the maize genome. PLoS Genet (2009) 2.33
High-density SNP-based genetic map development and linkage disequilibrium assessment in Brassica napus L. BMC Genomics (2013) 1.51
Advances in BAC-based physical mapping and map integration strategies in plants. J Biomed Biotechnol (2012) 1.48
MaizeGDB: curation and outreach go hand-in-hand. Database (Oxford) (2011) 1.39
MaizeGDB becomes 'sequence-centric'. Database (Oxford) (2009) 1.32
Detailed analysis of a contiguous 22-Mb region of the maize genome. PLoS Genet (2009) 1.29
Genome-wide analysis of bZIP-encoding genes in maize. DNA Res (2012) 1.14
BAC library resources for map-based cloning and physical map construction in barley (Hordeum vulgare L.). BMC Genomics (2011) 1.12
Molecular phylogenetic and expression analysis of the complete WRKY transcription factor family in maize. DNA Res (2012) 1.12
Generation of a BAC-based physical map of the melon genome. BMC Genomics (2010) 1.11
Natural variation in maize aphid resistance is associated with 2,4-dihydroxy-7-methoxy-1,4-benzoxazin-3-one glucoside methyltransferase activity. Plant Cell (2013) 1.10
Chromosomes in the flow to simplify genome analysis. Funct Integr Genomics (2012) 1.09
Choosing a genome browser for a Model Organism Database: surveying the maize community. Database (Oxford) (2010) 1.07
Evolutionary and comparative analyses of the soybean genome. Breed Sci (2012) 1.02
Fine quantitative trait loci mapping of carbon and nitrogen metabolism enzyme activities and seedling biomass in the maize IBM mapping population. Plant Physiol (2010) 0.97
Integrated consensus genetic and physical maps of flax (Linum usitatissimum L.). Theor Appl Genet (2012) 0.96
The repertoires of ubiquitinating and deubiquitinating enzymes in eukaryotic genomes. Mol Biol Evol (2013) 0.91
Functional diversification of FD transcription factors in rice, components of florigen activation complexes. Plant Cell Physiol (2013) 0.88
Automated update, revision, and quality control of the maize genome annotations using MAKER-P improves the B73 RefGen_v3 gene models and identifies new genes. Plant Physiol (2014) 0.87
A BAC-based physical map of Zhikong scallop (Chlamys farreri Jones et Preston). PLoS One (2011) 0.86
Whole genome profiling physical map and ancestral annotation of tobacco Hicks Broadleaf. Plant J (2013) 0.86
Unveiling the complexity of the maize transcriptome by single-molecule long-read sequencing. Nat Commun (2016) 0.83
A pair of new BAC and BIBAC vectors that facilitate BAC/BIBAC library construction and intact large genomic DNA insert exchange. Plant Methods (2011) 0.83
Development of pachytene FISH maps for six maize chromosomes and their integration with other maize maps for insights into genome structure variation. Chromosome Res (2012) 0.82
Targeted Sequencing Reveals Large-Scale Sequence Polymorphism in Maize Candidate Genes for Biomass Production and Composition. PLoS One (2015) 0.82
DNA methylation epigenetically silences crossover hot spots and controls chromosomal domains of meiotic recombination in Arabidopsis. Genes Dev (2015) 0.81
10 reasons to be tantalized by the B73 maize genome. PLoS Genet (2009) 0.80
Genome puzzle master (GPM): an integrated pipeline for building and editing pseudomolecules from fragmented sequences. Bioinformatics (2016) 0.79
Maize microarray annotation database. Plant Methods (2011) 0.79
In silico genotyping of the maize nested association mapping population. Mol Breed (2010) 0.79
Genomic resources for gene discovery, functional genome annotation, and evolutionary studies of maize and its close relatives. Genetics (2013) 0.79
A genetically anchored physical framework for Theobroma cacao cv. Matina 1-6. BMC Genomics (2011) 0.78
The MaizeGDB Genome Browser tutorial: one example of database outreach to biologists via video. Database (Oxford) (2011) 0.78
High Quality Maize Centromere 10 Sequence Reveals Evidence of Frequent Recombination Events. Front Plant Sci (2016) 0.77
Comparative sequence analysis of the Ghd7 orthologous regions revealed movement of Ghd7 in the grass genomes. PLoS One (2012) 0.77
The selection and use of sorghum (Sorghum propinquum) bacterial artificial chromosomes as cytogenetic FISH probes for maize (Zea mays L.). J Biomed Biotechnol (2010) 0.76
Identification and Characterization of Maize salmon silks Genes Involved in Insecticidal Maysin Biosynthesis. Plant Cell (2016) 0.76
Biosynthesis of 8-O-Methylated Benzoxazinoid Defense Compounds in Maize. Plant Cell (2016) 0.76
Image processing for optical mapping. Gigascience (2015) 0.75
Integration of the Draft Sequence and Physical Map as a Framework for Genomic Research in Soybean (Glycine max (L.) Merr.) and Wild Soybean (Glycine soja Sieb. and Zucc.). G3 (Bethesda) (2012) 0.75
Maligner: a fast ordered restriction map aligner. Bioinformatics (2015) 0.75
The map-based sequence of the rice genome. Nature (2005) 24.17
The B73 maize genome: complexity, diversity, and dynamics. Science (2009) 18.73
The Sorghum bicolor genome and the diversification of grasses. Nature (2009) 14.62
Cereal genome evolution. Grasses, line up and form a circle. Curr Biol (1995) 8.33
DNA sequence evidence for the segmental allotetraploid origin of maize. Proc Natl Acad Sci U S A (1997) 7.08
A first-generation haplotype map of maize. Science (2009) 6.82
Linkage relationships of 19 enzyme Loci in maize. Genetics (1980) 5.62
Contigs built with fingerprints, markers, and FPC V4.7. Genome Res (2000) 5.56
Genetic design and statistical power of nested association mapping in maize. Genetics (2008) 4.92
A new strategy for genome sequencing. Nature (1996) 4.61
Physical and genetic structure of the maize genome reflects its complex evolutionary history. PLoS Genet (2007) 3.66
A new method to compute K-mer frequencies and its application to annotate large repetitive plant genomes. BMC Genomics (2008) 3.57
Enrichment of gene-coding sequences in maize by genome filtration. Science (2003) 3.41
Maize genome sequencing by methylation filtration. Science (2003) 3.31
Sequence composition and genome organization of maize. Proc Natl Acad Sci U S A (2004) 3.22
Development and mapping of SSR markers for maize. Plant Mol Biol (2002) 2.83
Structure and architecture of the maize genome. Plant Physiol (2005) 2.52
A single molecule scaffold for the maize genome. PLoS Genet (2009) 2.33
A maize map standard with sequenced core markers, grass genome reference points and 932 expressed sequence tagged sites (ESTs) in a 1736-locus map. Genetics (1999) 2.33
Anchoring 9,371 maize expressed sequence tagged unigenes to the bacterial artificial chromosome contig map by two-dimensional overgo hybridization. Plant Physiol (2004) 2.19
Genetic, physical, and informatics resources for maize. On the road to an integrated map. Plant Physiol (2002) 2.13
Whole-genome validation of high-information-content fingerprinting. Plant Physiol (2005) 1.98
Uneven chromosome contraction and expansion in the maize genome. Genome Res (2006) 1.96
Genetic dissection of intermated recombinant inbred lines using a new genetic map of maize. Genetics (2006) 1.89
Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs. PLoS Genet (2009) 1.83
Mu transposon insertion sites and meiotic recombination events co-localize with epigenetic marks for open chromatin across the maize genome. PLoS Genet (2009) 1.70
Duplicated chromosome segments in maize (Zea mays L.): further evidence from hexokinase isozymes. Theor Appl Genet (1986) 1.41
Methylation-sensitive linking libraries enhance gene-enriched sequencing of complex genomes and map DNA methylation domains. BMC Genomics (2008) 0.88
Initial sequencing and comparative analysis of the mouse genome. Nature (2002) 96.15
A second generation human haplotype map of over 3.1 million SNPs. Nature (2007) 85.39
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res (2005) 44.08
Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1. Cancer Cell (2010) 39.09
DNA sequencing of a cytogenetically normal acute myeloid leukaemia genome. Nature (2008) 38.13
Recurring mutations found by sequencing an acute myeloid leukemia genome. N Engl J Med (2009) 33.09
Whole-genome sequencing and variant discovery in C. elegans. Nat Methods (2008) 31.92
Mapping and sequencing of structural variation from eight human genomes. Nature (2008) 30.28
Somatic mutations affect key pathways in lung adenocarcinoma. Nature (2008) 30.02
International network of cancer genome projects. Nature (2010) 20.35
Genome remodelling in a basal-like breast cancer metastasis and xenograft. Nature (2010) 19.68
The B73 maize genome: complexity, diversity, and dynamics. Science (2009) 18.73
BreakDancer: an algorithm for high-resolution mapping of genomic structural variation. Nat Methods (2009) 18.41
Evolution of genes and genomes on the Drosophila phylogeny. Nature (2007) 18.01
Genome sequence of the palaeopolyploid soybean. Nature (2010) 17.82
Genome-wide detection and characterization of positive selection in human populations. Nature (2007) 17.27
Characterizing the cancer genome in lung adenocarcinoma. Nature (2007) 16.48
Evolutionary and biomedical insights from the rhesus macaque genome. Science (2007) 16.21
Identification of a CpG island methylator phenotype that defines a distinct subgroup of glioma. Cancer Cell (2010) 16.12
VarScan: variant detection in massively parallel sequencing of individual and pooled samples. Bioinformatics (2009) 16.04
VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing. Genome Res (2012) 15.90
The Sorghum bicolor genome and the diversification of grasses. Nature (2009) 14.62
Clonal evolution in relapsed acute myeloid leukaemia revealed by whole-genome sequencing. Nature (2012) 14.33
DNMT3A mutations in acute myeloid leukemia. N Engl J Med (2010) 14.07
The genome sequence of Caenorhabditis briggsae: a platform for comparative genomics. PLoS Biol (2003) 13.32
The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. Nature (2003) 12.44
Big data: The future of biocuration. Nature (2008) 10.81
The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism. Science (2004) 9.97
The genetic basis of early T-cell precursor acute lymphoblastic leukaemia. Nature (2012) 9.89
De novo gene disruptions in children on the autistic spectrum. Neuron (2012) 9.69
The origin and evolution of mutations in acute myeloid leukemia. Cell (2012) 9.66
The genetic architecture of maize flowering time. Science (2009) 9.27
A high-resolution map of human evolutionary constraint using 29 mammals. Nature (2011) 8.67
The genome of the kinetoplastid parasite, Leishmania major. Science (2005) 8.64
Comparison of genome degradation in Paratyphi A and Typhi, human-restricted serovars of Salmonella enterica that cause typhoid. Nat Genet (2004) 8.60
A catalog of reference genomes from the human microbiome. Science (2010) 8.10
Whole-genome analysis informs breast cancer response to aromatase inhibition. Nature (2012) 8.03
Genetic properties of the maize nested association mapping population. Science (2009) 7.78
Somatic histone H3 alterations in pediatric diffuse intrinsic pontine gliomas and non-brainstem glioblastomas. Nat Genet (2012) 7.61
Genome sequence of Yersinia pestis KIM. J Bacteriol (2002) 7.14
Gene discovery and annotation using LCM-454 transcriptome sequencing. Genome Res (2006) 7.10
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome. Genome Res (2007) 7.05
Ancestral polyploidy in seed plants and angiosperms. Nature (2011) 7.00
The DNA sequence of the human X chromosome. Nature (2005) 6.97
Clonal architecture of secondary acute myeloid leukemia. N Engl J Med (2012) 6.71
Development and mapping of 2240 new SSR markers for rice (Oryza sativa L.). DNA Res (2002) 6.65
Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans. Nature (2009) 6.44
The Ashbya gossypii genome as a tool for mapping the ancient Saccharomyces cerevisiae genome. Science (2004) 6.25
Genomic landscape of non-small cell lung cancer in smokers and never-smokers. Cell (2012) 6.09
Viral discovery and sequence recovery using DNA microarrays. PLoS Biol (2003) 5.95
SNP discovery via 454 transcriptome sequencing. Plant J (2007) 5.92
The genome of a songbird. Nature (2010) 5.90
Evolution of symbiotic bacteria in the distal human intestine. PLoS Biol (2007) 5.79
Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium. Nature (2010) 5.79
Genome analysis of the platypus reveals unique signatures of evolution. Nature (2008) 5.74
SomaticSniper: identification of somatic point mutations in whole genome sequencing data. Bioinformatics (2011) 5.62
A genome-wide comparison of recent chimpanzee and human segmental duplications. Nature (2005) 5.51
Comparative genomics of Salmonella enterica serovar Typhi strains Ty2 and CT18. J Bacteriol (2003) 5.45
Lineage-specific biology revealed by a finished genome assembly of the mouse. PLoS Biol (2009) 5.45