Published in Gigascience on December 27, 2012
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Divergent astrovirus associated with neurologic disease in cattle. Emerg Infect Dis (2013) 1.51
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A genetic signature of the evolution of loss of flight in the Galapagos cormorant. Science (2017) 1.40
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Automated ensemble assembly and validation of microbial genomes. BMC Bioinformatics (2014) 1.33
An improved genome release (version Mt4.0) for the model legume Medicago truncatula. BMC Genomics (2014) 1.32
An ensemble strategy that significantly improves de novo assembly of microbial genomes from metagenomic next-generation sequencing data. Nucleic Acids Res (2015) 1.30
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Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus. PLoS Genet (2014) 1.21
Comparing viral metagenomics methods using a highly multiplexed human viral pathogens reagent. J Virol Methods (2014) 1.20
Phylogenomics provides strong evidence for relationships of butterflies and moths. Proc Biol Sci (2014) 1.20
De novo assembly of bacterial transcriptomes from RNA-seq data. Genome Biol (2015) 1.18
Draft genome sequence of Phomopsis longicolla isolate MSPL 10-6. Genom Data (2014) 1.18
FGAP: an automated gap closing tool. BMC Res Notes (2014) 1.18
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Possible loss of the chloroplast genome in the parasitic flowering plant Rafflesia lagascae (Rafflesiaceae). Mol Biol Evol (2014) 1.16
L_RNA_scaffolder: scaffolding genomes with transcripts. BMC Genomics (2013) 1.16
Draft Genome Sequence of the Xylella fastidiosa CoDiRO Strain. Genome Announc (2015) 1.16
Lighter: fast and memory-efficient sequencing error correction without counting. Genome Biol (2014) 1.16
Validation and assessment of variant calling pipelines for next-generation sequencing. Hum Genomics (2014) 1.16
Technical and implementation issues in using next-generation sequencing of cancers in clinical practice. Br J Cancer (2013) 1.16
De novo characterization of the Anthurium transcriptome and analysis of its digital gene expression under cold stress. BMC Genomics (2013) 1.14
Transcriptome-mining for single-copy nuclear markers in ferns. PLoS One (2013) 1.12
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A high-density genetic map of cucumber derived from Specific Length Amplified Fragment sequencing (SLAF-seq). Front Plant Sci (2015) 1.12
Taxator-tk: precise taxonomic assignment of metagenomes by fast approximation of evolutionary neighborhoods. Bioinformatics (2014) 1.11
Multiplex sequencing of pooled mitochondrial genomes-a crucial step toward biodiversity analysis using mito-metagenomics. Nucleic Acids Res (2014) 1.10
The emerging biofuel crop Camelina sativa retains a highly undifferentiated hexaploid genome structure. Nat Commun (2014) 1.10
Phytochrome diversity in green plants and the origin of canonical plant phytochromes. Nat Commun (2015) 1.09
Novel variation and de novo mutation rates in population-wide de novo assembled Danish trios. Nat Commun (2015) 1.09
Birth of a W sex chromosome by horizontal transfer of Wolbachia bacterial symbiont genome. Proc Natl Acad Sci U S A (2016) 1.08
The completed genome sequence of the pathogenic ascomycete fungus Fusarium graminearum. BMC Genomics (2015) 1.07
GATB: Genome Assembly & Analysis Tool Box. Bioinformatics (2014) 1.06
The genome sequence of Sea-Island cotton (Gossypium barbadense) provides insights into the allopolyploidization and development of superior spinnable fibres. Sci Rep (2015) 1.05
Century-scale methylome stability in a recently diverged Arabidopsis thaliana lineage. PLoS Genet (2015) 1.05
Genome sequencing and analysis of BCG vaccine strains. PLoS One (2013) 1.05
Faecal virome of cats in an animal shelter. J Gen Virol (2014) 1.04
Insights into transcriptional changes that accompany organelle sequestration from the stolen nucleus of Mesodinium rubrum. BMC Genomics (2015) 1.04
Characteristics of de novo structural changes in the human genome. Genome Res (2015) 1.04
The genome sequence and effector complement of the flax rust pathogen Melampsora lini. Front Plant Sci (2014) 1.03
Population structure and domestication revealed by high-depth resequencing of Korean cultivated and wild soybean genomes. DNA Res (2013) 1.02
Saccharina genomes provide novel insight into kelp biology. Nat Commun (2015) 1.02
Mudskipper genomes provide insights into the terrestrial adaptation of amphibious fishes. Nat Commun (2014) 1.01
Genome sequence of the Asian Tiger mosquito, Aedes albopictus, reveals insights into its biology, genetics, and evolution. Proc Natl Acad Sci U S A (2015) 1.01
Long-Term Evolution of Burkholderia multivorans during a Chronic Cystic Fibrosis Infection Reveals Shifting Forces of Selection. mSystems (2016) 1.01
Molecular Epidemiology of Colonizing and Infecting Isolates of Klebsiella pneumoniae. mSphere (2016) 1.01
In vitro, long-range sequence information for de novo genome assembly via transposase contiguity. Genome Res (2014) 1.01
Genome sequencing of the perciform fish Larimichthys crocea provides insights into molecular and genetic mechanisms of stress adaptation. PLoS Genet (2015) 1.01
Virome Capture Sequencing Enables Sensitive Viral Diagnosis and Comprehensive Virome Analysis. MBio (2015) 1.00
Erratum: SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler. Gigascience (2015) 0.99
QuorUM: An Error Corrector for Illumina Reads. PLoS One (2015) 0.99
Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products. PeerJ (2014) 0.99
De novo assembly of a haplotype-resolved human genome. Nat Biotechnol (2015) 0.98
Peering into peer-review at GigaScience. Gigascience (2013) 0.98
Genome-wide selective sweeps and gene-specific sweeps in natural bacterial populations. ISME J (2016) 0.98
Comparative genomic analysis of 45 type strains of the genus Bifidobacterium: a snapshot of its genetic diversity and evolution. PLoS One (2015) 0.97
De Novo Whole-Genome Sequence and Genome Annotation of Lichtheimia ramosa. Genome Announc (2014) 0.97
Complete Genome Sequence of Exiguobacterium sp. Strain MH3, Isolated from Rhizosphere of Lemna minor. Genome Announc (2013) 0.97
Genomic signature of multidrug-resistant Salmonella enterica serovar typhi isolates related to a massive outbreak in Zambia between 2010 and 2012. J Clin Microbiol (2014) 0.97
Novel modes of RNA editing in mitochondria. Nucleic Acids Res (2016) 0.97
MyPro: A seamless pipeline for automated prokaryotic genome assembly and annotation. J Microbiol Methods (2015) 0.96
Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments. Nat Biotechnol (2017) 0.96
Complete Genome Sequence of Paenibacillus polymyxa CR1, a Plant Growth-Promoting Bacterium Isolated from the Corn Rhizosphere Exhibiting Potential for Biocontrol, Biomass Degradation, and Biofuel Production. Genome Announc (2014) 0.96
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IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth. Bioinformatics (2012) 11.56
GAGE: A critical evaluation of genome assemblies and assembly algorithms. Genome Res (2012) 11.33
Limitations of next-generation genome sequence assembly. Nat Methods (2010) 9.04
Assemblathon 1: a competitive assessment of de novo short read assembly methods. Genome Res (2011) 8.38
Shotgun sequence assembly and recent segmental duplications within the human genome. Nature (2004) 7.91
SOPRA: Scaffolding algorithm for paired reads via statistical optimization. BMC Bioinformatics (2010) 4.76
Exploiting sparseness in de novo genome assembly. BMC Bioinformatics (2012) 2.88
A second generation human haplotype map of over 3.1 million SNPs. Nature (2007) 85.39
SOAP: short oligonucleotide alignment program. Bioinformatics (2008) 68.13
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A human gut microbial gene catalogue established by metagenomic sequencing. Nature (2010) 43.63
A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science (2002) 42.78
SOAP2: an improved ultrafast tool for short read alignment. Bioinformatics (2009) 39.47
Enterotypes of the human gut microbiome. Nature (2011) 24.36
Characterization of microRNAs in serum: a novel class of biomarkers for diagnosis of cancer and other diseases. Cell Res (2008) 20.59
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proc Natl Acad Sci U S A (2002) 20.48
The genome sequence of the malaria mosquito Anopheles gambiae. Science (2002) 20.36
International network of cancer genome projects. Nature (2010) 20.35
Evolution of genes and genomes on the Drosophila phylogeny. Nature (2007) 18.01
Genome-wide detection and characterization of positive selection in human populations. Nature (2007) 17.27
SNP detection for massively parallel whole-genome resequencing. Genome Res (2009) 15.96
The sequence and de novo assembly of the giant panda genome. Nature (2009) 15.76
WEGO: a web tool for plotting GO annotations. Nucleic Acids Res (2006) 13.06
Mapping copy number variation by population-scale genome sequencing. Nature (2011) 12.55
A systematic survey of loss-of-function variants in human protein-coding genes. Science (2012) 12.25
A metagenome-wide association study of gut microbiota in type 2 diabetes. Nature (2012) 11.68
Sequencing of 50 human exomes reveals adaptation to high altitude. Science (2010) 11.27
A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome. Science (2002) 9.59
TreeFam: a curated database of phylogenetic trees of animal gene families. Nucleic Acids Res (2006) 8.83
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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
An abundance of rare functional variants in 202 drug target genes sequenced in 14,002 people. Science (2012) 7.94
Genome sequence and analysis of the tuber crop potato. Nature (2011) 7.77
The Genomes of Oryza sativa: a history of duplications. PLoS Biol (2005) 7.67
Ancient human genome sequence of an extinct Palaeo-Eskimo. Nature (2010) 7.51
A double-negative feedback loop between ZEB1-SIP1 and the microRNA-200 family regulates epithelial-mesenchymal transition. Cancer Res (2008) 7.45
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