Published in Genome Res on April 22, 2014
Hemichordate genomes and deuterostome origins. Nature (2015) 1.62
Clinical metagenomic identification of Balamuthia mandrillaris encephalitis and assembly of the draft genome: the continuing case for reference genome sequencing. Genome Med (2015) 1.60
Chromosomal-Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding. PLoS Genet (2016) 1.49
DFAST and DAGA: web-based integrated genome annotation tools and resources. Biosci Microbiota Food Health (2016) 1.30
Phased diploid genome assembly with single-molecule real-time sequencing. Nat Methods (2016) 1.22
The genomic basis of parasitism in the Strongyloides clade of nematodes. Nat Genet (2016) 1.09
Survey of genome sequences in a wild sweet potato, Ipomoea trifida (H. B. K.) G. Don. DNA Res (2015) 1.08
The DDBJ Japanese Genotype-phenotype Archive for genetic and phenotypic human data. Nucleic Acids Res (2014) 1.00
Draft Genome Sequence of Enterococcus faecium Strain 58m, Isolated from Intestinal Tract Content of a Woolly Mammoth, Mammuthus primigenius. Genome Announc (2016) 0.96
Mitochondrial Genome Sequences of Four Strains of the Bloom-Forming Raphidophyte Heterosigma akashiwo. Genome Announc (2016) 0.96
Comparative genome sequencing reveals genomic signature of extreme desiccation tolerance in the anhydrobiotic midge. Nat Commun (2014) 0.96
Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity. Nat Biotechnol (2016) 0.95
The Genome and Methylome of a Beetle with Complex Social Behavior, Nicrophorus vespilloides (Coleoptera: Silphidae). Genome Biol Evol (2015) 0.92
Best Practices in Insect Genome Sequencing: What Works and What Doesn't. Curr Opin Insect Sci (2015) 0.89
Draft genome of the Chinese mitten crab, Eriocheir sinensis. Gigascience (2016) 0.89
Aquatic adaptation and the evolution of smell and taste in whales. Zoological Lett (2015) 0.88
Contiguous and accurate de novo assembly of metazoan genomes with modest long read coverage. Nucleic Acids Res (2016) 0.87
Complete genomes of Hairstreak butterflies, their speciation, and nucleo-mitochondrial incongruence. Sci Rep (2016) 0.87
Draft Genome Sequence of Lewinella sp. Strain 4G2 Isolated from the Coastal Sea Surface Microlayer. Genome Announc (2016) 0.86
Speciation in Cloudless Sulphurs Gleaned from Complete Genomes. Genome Biol Evol (2016) 0.86
The Dendrobium catenatum Lindl. genome sequence provides insights into polysaccharide synthase, floral development and adaptive evolution. Sci Rep (2016) 0.86
Next-generation sequencing analysis of lager brewing yeast strains reveals the evolutionary history of interspecies hybridization. DNA Res (2016) 0.85
No Accumulation of Transposable Elements in Asexual Arthropods. Mol Biol Evol (2015) 0.85
Complete genome sequence and analysis of Lactobacillus hokkaidonensis LOOC260(T), a psychrotrophic lactic acid bacterium isolated from silage. BMC Genomics (2015) 0.84
Redundans: an assembly pipeline for highly heterozygous genomes. Nucleic Acids Res (2016) 0.83
The complete mitochondrial genome of Lerema accius and its phylogenetic implications. PeerJ (2016) 0.83
Unusually Large Number of Mutations in Asexually Reproducing Clonal Planarian Dugesia japonica. PLoS One (2015) 0.83
Skipper genome sheds light on unique phenotypic traits and phylogeny. BMC Genomics (2015) 0.83
VirusTAP: Viral Genome-Targeted Assembly Pipeline. Front Microbiol (2016) 0.82
Red clover (Trifolium pratense L.) draft genome provides a platform for trait improvement. Sci Rep (2015) 0.82
It's more than stamp collecting: how genome sequencing can unify biological research. Trends Genet (2015) 0.82
Comparative genome and transcriptome analyses of the social amoeba Acytostelium subglobosum that accomplishes multicellular development without germ-soma differentiation. BMC Genomics (2015) 0.82
Comparative Genome Analysis of Two Isolates of the Fish Pathogen Piscirickettsia salmonis from Different Hosts Reveals Major Differences in Virulence-Associated Secretion Systems. Genome Announc (2014) 0.81
The rubber tree genome shows expansion of gene family associated with rubber biosynthesis. Sci Rep (2016) 0.81
Timing and Scope of Genomic Expansion within Annelida: Evidence from Homeoboxes in the Genome of the Earthworm Eisenia fetida. Genome Biol Evol (2015) 0.81
Ecophysiology of Thioploca ingrica as revealed by the complete genome sequence supplemented with proteomic evidence. ISME J (2014) 0.80
Draft Genome Sequence of Veillonella tobetsuensis ATCC BAA-2400T Isolated from Human Tongue Biofilm. Genome Announc (2015) 0.80
Low coverage sequencing of three echinoderm genomes: the brittle star Ophionereis fasciata, the sea star Patiriella regularis, and the sea cucumber Australostichopus mollis. Gigascience (2016) 0.79
Identification of RAN1 orthologue associated with sex determination through whole genome sequencing analysis in fig (Ficus carica L.). Sci Rep (2017) 0.79
Multiple Origins of the Pathogenic Yeast Candida orthopsilosis by Separate Hybridizations between Two Parental Species. PLoS Genet (2016) 0.79
Dramatic improvement in genome assembly achieved using doubled-haploid genomes. Sci Rep (2014) 0.79
Genome puzzle master (GPM): an integrated pipeline for building and editing pseudomolecules from fragmented sequences. Bioinformatics (2016) 0.79
A Male-Specific Genetic Map of the Microcrustacean Daphnia pulex Based on Single-Sperm Whole-Genome Sequencing. Genetics (2015) 0.79
Complete genome of Pieris rapae, a resilient alien, a cabbage pest, and a source of anti-cancer proteins. F1000Res (2016) 0.79
Draft genome sequence of an inbred line of Chenopodium quinoa, an allotetraploid crop with great environmental adaptability and outstanding nutritional properties. DNA Res (2016) 0.79
The genome of the crustacean Parhyale hawaiensis, a model for animal development, regeneration, immunity and lignocellulose digestion. Elife (2016) 0.78
Draft Genome Sequences of Two Isolates of the Plant-Pathogenic Fungus Neonectria ditissima That Differ in Virulence. Genome Announc (2015) 0.78
Generation of physical map contig-specific sequences. Front Genet (2014) 0.78
The Mitochondrial Genomes of a Myxozoan Genus Kudoa Are Extremely Divergent in Metazoa. PLoS One (2015) 0.78
Complete Genome Sequence of a Phycodnavirus, Heterosigma akashiwo Virus Strain 53. Genome Announc (2016) 0.77
Hybrid de novo genome assembly of the Chinese herbal plant danshen (Salvia miltiorrhiza Bunge). Gigascience (2015) 0.77
The first draft genome of the aquatic model plant Lemna minor opens the route for future stress physiology research and biotechnological applications. Biotechnol Biofuels (2015) 0.77
Comparative genomics of the tardigrades Hypsibius dujardini and Ramazzottius varieornatus. PLoS Biol (2017) 0.77
A Metagenomic Approach to Cyanobacterial Genomics. Front Microbiol (2017) 0.76
Sequencing and comparative analyses of the genomes of zoysiagrasses. DNA Res (2016) 0.76
Draft Genome Sequence of the Pathogenic Filamentous Fungus Aspergillus udagawae Strain IFM 46973T. Genome Announc (2015) 0.76
Draft Genome Sequence of Lactobacillus oryzae Strain SG293T. Genome Announc (2014) 0.76
Draft genome sequence of the Tibetan medicinal herb, Rhodiola crenulata. Gigascience (2017) 0.75
Draft Genome Sequences of Tersicoccus phoenicis DSM 30849(T), Isolated from a Cleanroom for Spacecraft Assembly, and Tersicoccus sp. Strain Bi-70, Isolated from a Freshwater Lake. Genome Announc (2017) 0.75
Draft Genome Sequence of the Fish Pathogen Mycobacterium pseudoshottsii Strain JCM15466, a Species Closely Related to M. marinum. Genome Announc (2016) 0.75
Genomic innovations linked to infection strategies across emerging pathogenic chytrid fungi. Nat Commun (2017) 0.75
Genome analysis of Hibiscus syriacus provides insights of polyploidization and indeterminate flowering in woody plants. DNA Res (2016) 0.75
Draft Genome Sequence of Chlamydia trachomatis Strain 54, Isolated from the Urogenital Tract of a Male in Japan. Genome Announc (2015) 0.75
Draft Genome Sequences of Five Rapidly Growing Mycobacterium Species, M. thermoresistibile, M. fortuitum subsp. acetamidolyticum, M. canariasense, M. brisbanense, and M. novocastrense. Genome Announc (2016) 0.75
in silico Whole Genome Sequencer & Analyzer (iWGS): A Computational Pipeline to Guide the Design and Analysis of de novo Genome Sequencing Studies. G3 (Bethesda) (2016) 0.75
Genomic resources and draft assemblies of the human and porcine varieties of scabies mites, Sarcoptes scabiei var. hominis and var. suis. Gigascience (2016) 0.75
Mitochondrial Genome Sequence of the Glass Sponge Oopsacas minuta. Genome Announc (2015) 0.75
The draft genome of whitefly Bemisia tabaci MEAM1, a global crop pest, provides novel insights into virus transmission, host adaptation, and insecticide resistance. BMC Biol (2016) 0.75
Draft Genome Sequences of Legionella pneumophila JR32 and Lp01 Laboratory Strains Domesticated in Japan. Genome Announc (2016) 0.75
Identification and Characterization of Small Noncoding RNAs in Genome Sequences of the Edible Fungus Pleurotus ostreatus. Biomed Res Int (2016) 0.75
Conserved Noncoding Elements in the Most Distant Genera of Cephalochordates: The Goldilocks Principle. Genome Biol Evol (2016) 0.75
Extremely low genomic diversity of Rickettsia japonica distributed in Japan. Genome Biol Evol (2017) 0.75
An Improved Genome Assembly of Azadirachta indica A. Juss. G3 (Bethesda) (2016) 0.75
Genome Sequence of Ustilaginoidea virens IPU010, a Rice Pathogenic Fungus Causing False Smut. Genome Announc (2016) 0.75
Genome analysis of Diploscapter coronatus: insights into molecular peculiarities of a nematode with parthenogenetic reproduction. BMC Genomics (2017) 0.75
Draft Genome Sequences of Sarcina ventriculi Strains Isolated from Wild Japanese Macaques in Yakushima Island. Genome Announc (2016) 0.75
Acanthamoeba containing endosymbiotic chlamydia isolated from hospital environments and its potential role in inflammatory exacerbation. BMC Microbiol (2016) 0.75
Draft Genome Sequences of Two Fabibacter sp. Strains Isolated from Coastal Surface Water of Aburatsubo Inlet, Japan. Genome Announc (2016) 0.75
Draft Genome Assembly of the Bloom-Forming Cyanobacterium Nodularia spumigena Strain CENA596 in Shrimp Production Ponds. Genome Announc (2016) 0.75
Draft Genome Sequence of an Alphaproteobacterium Associated with the Mediterranean Sponge Oscarella lobularis. Genome Announc (2015) 0.75
An efficient approach to BAC based assembly of complex genomes. Plant Methods (2016) 0.75
Clustered brachiopod Hox genes are not expressed collinearly and are associated with lophotrochozoan novelties. Proc Natl Acad Sci U S A (2017) 0.75
Bacteriophages from ExPEC Reservoirs Kill Pandemic Multidrug-Resistant Strains of Clonal Group ST131 in Animal Models of Bacteremia. Sci Rep (2017) 0.75
Genome sequence of the type strain CLIB 1764(T) (= CBS 14374(T)) of the yeast species Kazachstania saulgeensis isolated from French organic sourdough. Genom Data (2017) 0.75
Vibrio aphrogenes sp. nov., in the Rumoiensis clade isolated from a seaweed. PLoS One (2017) 0.75
The draft genome sequence of a desert tree Populus pruinosa. Gigascience (2017) 0.75
The mitochondrial genome of the terrestrial carnivorous plant Utricularia reniformis (Lentibulariaceae): Structure, comparative analysis and evolutionary landmarks. PLoS One (2017) 0.75
Draft Genome Sequence of Rubricoccus marinus SG-29(T), a Marine Bacterium within the Family Rhodothermaceae, Which Contains Two Different Rhodopsin Genes. Genome Announc (2017) 0.75
Hybrid de novo genome assembly of the Chinese herbal fleabane Erigeron breviscapus. Gigascience (2017) 0.75
Chloroplast Genome Sequences of Seven Strains of the Bloom-Forming Raphidophyte Heterosigma akashiwo. Genome Announc (2017) 0.75
De novo genome assembly and annotation of Australia's largest freshwater fish, the Murray cod (Maccullochella peelii), from Illumina and Nanopore sequencing read. Gigascience (2017) 0.75
Similar ratios of introns to intergenic sequence across animal genomes. Genome Biol Evol (2017) 0.75
Two genomes of highly polyphagous lepidopteran pests (Spodoptera frugiperda, Noctuidae) with different host-plant ranges. Sci Rep (2017) 0.75
The Agassiz's desert tortoise genome provides a resource for the conservation of a threatened species. PLoS One (2017) 0.75
Genome sequencing of Metrosideros polymorpha (Myrtaceae), a dominant species in various habitats in the Hawaiian Islands with remarkable phenotypic variations. J Plant Res (2016) 0.75
The draft genome assembly of Rhododendron delavayi Franch. var. delavayi. Gigascience (2017) 0.75
Relating quantitative variation within a behavior to variation in transcription. Evolution (2017) 0.75
Genomic regions and genes related to inter-population differences in body size in the ground beetle Carabus japonicus. Sci Rep (2017) 0.75
Mechanism for restoration of fertility in hybrid Zygosaccharomyces rouxii generated by interspecies hybridization. Appl Environ Microbiol (2017) 0.75
The Sequence Alignment/Map format and SAMtools. Bioinformatics (2009) 232.39
Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res (2008) 151.16
BLAT--the BLAST-like alignment tool. Genome Res (2002) 126.78
Fast gapped-read alignment with Bowtie 2. Nat Methods (2012) 83.79
Genome sequence of the nematode C. elegans: a platform for investigating biology. Science (1998) 61.48
Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat Biotechnol (2011) 53.86
Versatile and open software for comparing large genomes. Genome Biol (2004) 49.45
De novo assembly of human genomes with massively parallel short read sequencing. Genome Res (2009) 45.91
A whole-genome assembly of Drosophila. Science (2000) 38.48
An Eulerian path approach to DNA fragment assembly. Proc Natl Acad Sci U S A (2001) 31.51
High-quality draft assemblies of mammalian genomes from massively parallel sequence data. Proc Natl Acad Sci U S A (2010) 22.97
SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler. Gigascience (2012) 20.89
The sequence and de novo assembly of the giant panda genome. Nature (2009) 15.76
GAGE: A critical evaluation of genome assemblies and assembly algorithms. Genome Res (2012) 11.33
Genome sequence and analysis of the tuber crop potato. Nature (2011) 7.77
Genome 10K: a proposal to obtain whole-genome sequence for 10,000 vertebrate species. J Hered (2009) 7.18
A high quality draft consensus sequence of the genome of a heterozygous grapevine variety. PLoS One (2007) 5.62
The oyster genome reveals stress adaptation and complexity of shell formation. Nature (2012) 5.30
The MaSuRCA genome assembler. Bioinformatics (2013) 5.07
The Norway spruce genome sequence and conifer genome evolution. Nature (2013) 4.74
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species. Gigascience (2013) 4.11
The genome sequence of Atlantic cod reveals a unique immune system. Nature (2011) 3.99
Genome sequencing reveals insights into physiology and longevity of the naked mole rat. Nature (2011) 3.19
De novo genome sequencing and comparative genomics of date palm (Phoenix dactylifera). Nat Biotechnol (2011) 2.94
Assembly of polymorphic genomes: algorithms and application to Ciona savignyi. Genome Res (2005) 2.69
Diploid genome reconstruction of Ciona intestinalis and comparative analysis with Ciona savignyi. Genome Res (2007) 2.37
Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer. Cell (2012) 2.37
Extreme genomic variation in a natural population. Proc Natl Acad Sci U S A (2007) 2.24
Ascaris suum draft genome. Nature (2011) 2.16
A heterozygous moth genome provides insights into herbivory and detoxification. Nat Genet (2013) 2.13
Draft genome of the pearl oyster Pinctada fucata: a platform for understanding bivalve biology. DNA Res (2012) 1.69
High genome heterozygosity and endemic genetic recombination in the wheat stripe rust fungus. Nat Commun (2013) 1.28