Profiling SNP and Nucleotide Diversity to Characterize Mekong Delta Rice Landraces in Southeast Asian Populations

Comparative analysis of genetic diversity and differentiation of cauliflower (Brassica oleracea var. botrytis) accessions from two ex situ genebanks

(2018) Eltohamy A. A. Yousef et al.   PLoS One

Estimating rice production in the Mekong Delta, Vietnam, utilizing time series of Sentinel-1 SAR data

(2018) Kersten Clauss et al.   International Journal of Applied Earth Observation and Geoinformation

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

(2018) Wensheng Wang et al.   NATURE

Genome-wide association study discovered favorable single nucleotide polymorphisms and candidate genes associated with ramet number in ramie (Boehmeria nivea L.)

(2018) Kunmei Chen et al.   BMC PLANT BIOLOGY

Identification of loci associated with fruit traits using genome-wide single nucleotide polymorphisms in a core collection of tomato (Solanum lycopersicum L.)

(2018) Ngan Thi Phan et al.   SCIENTIA HORTICULTURAE

RAD-Seq analysis of typical and minor Citrus accessions, including Bhutanese varieties

(2016) Tshering Penjor et al.   BREEDING SCIENCE

GA Mediated OsZAT-12 Expression Improves Salt Resistance of Rice

(2016) Qari Muhammad Imran et al.   INTERNATIONAL JOURNAL OF AGRICULTURE AND BIOLOGY

Rice SNP-seek database update: new SNPs, indels, and queries

(2016) Locedie Mansueto et al.   NUCLEIC ACIDS RESEARCH

Genetic diversity analysis of Pakistan rice (Oryza sativa) germplasm using multiplexed single nucleotide polymorphism markers

(2015) Shahid Masood Shah et al.   GENETIC RESOURCES AND CROP EVOLUTION

Genetic diversity patterns of rice (Oryza sativa L.) landraces after migration by Tai Lue and Akha between China and Thailand

(2015) Angkhana Inta et al.   GENETIC RESOURCES AND CROP EVOLUTION

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Application of next-generation sequencing technology to study genetic diversity and identify unique SNP markers in bread wheat from Kazakhstan

(2014) Yuri Shavrukov et al.   BMC PLANT BIOLOGY

Characterization of a panel of Vietnamese rice varieties using DArT and SNP markers for association mapping purposes

(2014) Nhung Thi Phuong Phung et al.   BMC PLANT BIOLOGY

Variations on a Common STRUCTURE: New Algorithms for a Valuable Model

(2014) J. Novembre   GENETICS

Harvesting the Promising Fruits of Genomics: Applying Genome Sequencing Technologies to Crop Breeding

(2014) Rajeev K. Varshney et al.   PLOS BIOLOGY

Next generation sequencing technologies for next generation plant breeding

(2014) Soham Ray et al.   Frontiers in Plant Science

Rice Annotation Project Database (RAP-DB): An Integrative and Interactive Database for Rice Genomics

(2013) Hiroaki Sakai et al.   PLANT AND CELL PHYSIOLOGY

Application of next-generation sequencing for rapid marker development in molecular plant breeding: a case study on anthracnose disease resistance in Lupinus angustifolius L.

(2012) Huaan Yang et al.   BMC GENOMICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species

(2012) Brant K. Peterson et al.   PLoS One

Enhancements to the ADMIXTURE algorithm for individual ancestry estimation

(2011) David H Alexander et al.   BMC BIOINFORMATICS

A Rice Diversity Panel Evaluated for Genetic and Agro-Morphological Diversity between Subpopulations and its Geographic Distribution

(2011) M. Liakat Ali et al.   CROP SCIENCE

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Assessment of genetic diversity and relationships of upland rice accessions from southwest China using microsatellite markers

(2010) S. Tang et al.   PLANT BIOSYSTEMS

Fast model-based estimation of ancestry in unrelated individuals

(2009) D. H. Alexander et al.   GENOME RESEARCH

The origin and evolution of fragrance in rice (Oryza sativa L.)

(2009) M. J. Kovach et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Hd3a and RFT1 are essential for flowering in rice

(2008) R. Komiya et al.   DEVELOPMENT

Principal component analysis of genetic data

(2008) David Reich et al.   NATURE GENETICS

Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers

(2008) Nathan A. Baird et al.   PLoS One