Resequencing 250 Soybean Accessions: New Insights into Genes Associated with Agronomic Traits and Genetic Networks

rMVP: A Memory-efficient, Visualization-enhanced, and Parallel-accelerated tool for Genome-Wide Association Study

(2021) Lilin Yin et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

SR4R: An Integrative SNP Resource for Genomic Breeding and Population Research in Rice

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Interactive Tree Of Life (iTOL) v4: recent updates and new developments

(2019) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Genome assembly of a tropical maize inbred line provides insights into structural variation and crop improvement

(2019) Ning Yang et al.   NATURE GENETICS

Genome-wide Scan for Seed Composition Provides Insights into Soybean Quality Improvement and the Impacts of Domestication and Breeding

(2018) Jiaoping Zhang et al.   Molecular Plant

Genomic variation in 3,010 diverse accessions of Asian cultivated rice

(2018) Wensheng Wang et al.   NATURE

Soybean domestication: the origin, genetic architecture and molecular bases

(2017) Eric J. Sedivy et al.   NEW PHYTOLOGIST

Genome Variation Map: a data repository of genome variations in BIG Data Center

(2017) Shuhui Song et al.   NUCLEIC ACIDS RESEARCH

The FAD2 Gene in Plants: Occurrence, Regulation, and Role

(2017) Aejaz A. Dar et al.   Frontiers in Plant Science

GSA: Genome Sequence Archive *

(2017) Yanqing Wang et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

The distribution of runs of homozygosity and selection signatures in six commercial meat sheep breeds

(2017) Deirdre C. Purfield et al.   PLoS One

Single-Molecule Sequencing Assists Genome Assembly Improvement and Structural Variation Inference

(2016) Jun Yan et al.   Molecular Plant

Genome-wide association study using whole-genome sequencing rapidly identifies new genes influencing agronomic traits in rice

(2016) Kenji Yano et al.   NATURE GENETICS

The STRING database in 2017: quality-controlled protein–protein association networks, made broadly accessible

(2016) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Detecting the QTL-allele system of seed isoflavone content in Chinese soybean landrace population for optimal cross design and gene system exploration

(2016) Shan Meng et al.   THEORETICAL AND APPLIED GENETICS

Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters

(2016) Samuel Crowell et al.   Nature Communications

Resequencing 302 wild and cultivated accessions identifies genes related to domestication and improvement in soybean

(2015) Zhengkui Zhou et al.   NATURE BIOTECHNOLOGY

SpeedSeq: ultra-fast personal genome analysis and interpretation

(2015) Colby Chiang et al.   NATURE METHODS

Transcriptional control of flavonoid biosynthesis by MYB–bHLH–WDR complexes

(2015) Wenjia Xu et al.   TRENDS IN PLANT SCIENCE

Second-generation PLINK: rising to the challenge of larger and richer datasets

(2015) Christopher C Chang et al.   GigaScience

fastSTRUCTURE: Variational Inference of Population Structure in Large SNP Data Sets

(2014) Anil Raj et al.   GENETICS

Connecting Growth and Defense: The Emerging Roles of Brassinosteroids and Gibberellins in Plant Innate Immunity

(2014) Lieselotte De Bruyne et al.   Molecular Plant

Fast Principal Component Analysis of Large-Scale Genome-Wide Data

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Integration of epigenetic and genetic controls of seed size by cytokinin in Arabidopsis

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MEGA-CC: computing core of molecular evolutionary genetics analysis program for automated and iterative data analysis

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Genome-wide efficient mixed-model analysis for association studies

(2012) Xiang Zhou et al.   NATURE GENETICS

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Fast and accurate long-read alignment with Burrows–Wheeler transform

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A Brief Historical Overview of the Past Two Decades of Soy and Isoflavone Research

(2010) Mark Messina   JOURNAL OF NUTRITION

Genome sequence of the palaeopolyploid soybean

(2010) Jeremy Schmutz et al.   NATURE

Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection

(2010) Hon-Ming Lam et al.   NATURE GENETICS

ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data

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BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

SoyBase, the USDA-ARS soybean genetics and genomics database

(2009) David Grant et al.   NUCLEIC ACIDS RESEARCH

Best linear unbiased prediction for linear combinations in general mixed linear models

(2008) Xu-Qing Liu et al.   JOURNAL OF MULTIVARIATE ANALYSIS

Specialization of CDC27 function in theArabidopsis thalianaanaphase-promoting complex (APC/C)

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