Genomic variation in 3,010 diverse accessions of Asian cultivated rice
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Title
Genomic variation in 3,010 diverse accessions of Asian cultivated rice
Authors
Keywords
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Journal
NATURE
Volume 557, Issue 7703, Pages 43-49
Publisher
Springer Nature
Online
2018-04-20
DOI
10.1038/s41586-018-0063-9
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- (2018) Joshua C. Stein et al. NATURE GENETICS
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- (2017) Benjamin A. Wilson et al. Nature Ecology & Evolution
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- (2016) Jianwei Zhang et al. BIOINFORMATICS
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- (2016) Chen-Shan Chin et al. NATURE METHODS
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- (2016) Agnieszka A. Golicz et al. Nature Communications
- BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
- (2015) Felipe A. Simão et al. BIOINFORMATICS
- Ten years of pan-genome analyses
- (2015) George Vernikos et al. CURRENT OPINION IN MICROBIOLOGY
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- (2015) Yuexing Wang et al. NATURE GENETICS
- HISAT: a fast spliced aligner with low memory requirements
- (2015) Daehwan Kim et al. NATURE METHODS
- HMMER web server: 2015 update
- (2015) Robert D. Finn et al. NUCLEIC ACIDS RESEARCH
- Second-generation PLINK: rising to the challenge of larger and richer datasets
- (2015) Christopher C Chang et al. GigaScience
- Trimmomatic: a flexible trimmer for Illumina sequence data
- (2014) Anthony M. Bolger et al. BIOINFORMATICS
- SNP-Seek database of SNPs derived from 3000 rice genomes
- (2014) Nickolai Alexandrov et al. NUCLEIC ACIDS RESEARCH
- Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement
- (2014) Bruce J. Walker et al. PLoS One
- The 3,000 rice genomes project
- (2014) GigaScience
- QUAST: quality assessment tool for genome assemblies
- (2013) Alexey Gurevich et al. BIOINFORMATICS
- CD-HIT: accelerated for clustering the next-generation sequencing data
- (2012) Limin Fu et al. BIOINFORMATICS
- A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff
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- (2012) Papa Abdoulaye Seck et al. Food Security
- MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects
- (2011) Carson Holt et al. BMC BIOINFORMATICS
- 14-3-3 proteins act as intracellular receptors for rice Hd3a florigen
- (2011) Ken-ichiro Taoka et al. NATURE
- Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes
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- Genetic Control of a Transition from Black to Straw-White Seed Hull in Rice Domestication
- (2011) B.-F. Zhu et al. PLANT PHYSIOLOGY
- phangorn: phylogenetic analysis in R
- (2010) Klaus Peter Schliep BIOINFORMATICS
- BEDTools: a flexible suite of utilities for comparing genomic features
- (2010) Aaron R. Quinlan et al. BIOINFORMATICS
- The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
- (2010) A. McKenna et al. GENOME RESEARCH
- Q-TARO: QTL Annotation Rice Online Database
- (2010) Jun-ichi Yonemaru et al. Rice
- Chromosomal Redistribution of Male-Biased Genes in Mammalian Evolution with Two Bursts of Gene Gain on the X Chromosome
- (2010) Yong E. Zhang et al. PLOS BIOLOGY
- Fast and accurate short read alignment with Burrows-Wheeler transform
- (2009) H. Li et al. BIOINFORMATICS
- Fast model-based estimation of ancestry in unrelated individuals
- (2009) D. H. Alexander et al. GENOME RESEARCH
- Isolation and initial characterization of GW5, a major QTL associated with rice grain width and weight
- (2008) Jianfeng Weng et al. CELL RESEARCH
- Control of a key transition from prostrate to erect growth in rice domestication
- (2008) Lubin Tan et al. NATURE GENETICS
- Deletion in a gene associated with grain size increased yields during rice domestication
- (2008) Ayahiko Shomura et al. NATURE GENETICS
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