Comparative whole genome re-sequencing analysis in upland New Rice for Africa: insights into the breeding history and respective genome compositions

Effect of salt stress on physiological response and leaf polyamine content in NERICA rice seedlings

(2018) A. Yamamoto et al.   PLANT SOIL AND ENVIRONMENT

agriGO v2.0: a GO analysis toolkit for the agricultural community, 2017 update

(2017) Tian Tian et al.   NUCLEIC ACIDS RESEARCH

Genetic and Evolutionary Analysis of Purple Leaf Sheath in Rice

(2016) Han-shiuan Chin et al.   Rice

KMC 2: fast and resource-frugal k-mer counting

(2015) Sebastian Deorowicz et al.   BIOINFORMATICS

Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications

(2015) Xiaoyu Chen et al.   BIOINFORMATICS

Do NERICA rice cultivars express resistance to Striga hermonthica (Del.) Benth. and Striga asiatica (L.) Kuntze under field conditions?

(2015) Jonne Rodenburg et al.   FIELD CROPS RESEARCH

MaizeGDB update: new tools, data and interface for the maize model organism database

(2015) Carson M. Andorf et al.   NUCLEIC ACIDS RESEARCH

A knowledge-based molecular screen uncovers a broad-spectrumOsSWEET14resistance allele to bacterial blight from wild rice

(2015) Mathilde Hutin et al.   PLANT JOURNAL

The Presence of Fucogalactoxyloglucan and Its Synthesis in Rice Indicates Conserved Functional Importance in Plants

(2015) Lifeng Liu et al.   PLANT PHYSIOLOGY

Action of multiple intra-QTL genes concerted around a co-localized transcription factor underpins a large effect QTL

(2015) Shalabh Dixit et al.   Scientific Reports

Convergent Loss of Awn in Two Cultivated Rice Species Oryza sativa and Oryza glaberrima Is Caused by Mutations in Different Loci

(2015) Tomoyuki Furuta et al.   G3-Genes Genomes Genetics

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Development of a SNP genotyping panel for detecting polymorphisms in Oryza glaberrima/O. sativa interspecific crosses

(2014) Juan Pariasca-Tanaka et al.   EUPHYTICA

The genome sequence of African rice (Oryza glaberrima) and evidence for independent domestication

(2014) Muhua Wang et al.   NATURE GENETICS

SNP-Seek database of SNPs derived from 3000 rice genomes

(2014) Nickolai Alexandrov et al.   NUCLEIC ACIDS RESEARCH

CGtag: complete genomics toolkit and annotation in a cloud-based Galaxy

(2014) Saskia Hiltemann et al.   GigaScience

Salinity tolerance, Na+ exclusion and allele mining of HKT1;5 in Oryza sativa and O. glaberrima: many sources, many genes, one mechanism?

(2013) John Damien Platten et al.   BMC PLANT BIOLOGY

Knights in Action: Lectin Receptor-Like Kinases in Plant Development and Stress Responses

(2013) Neha Vaid et al.   Molecular Plant

The advantages and limitations of trait analysis with GWAS: a review

(2013) Arthur Korte et al.   Plant Methods

Genetic characterization of rainfed upland New Rice for Africa (NERICA) varieties

(2012) Yoshimichi Fukuta et al.   BREEDING SCIENCE

Enhancing Rice Productivity in West Africa through Genetic Improvement

(2012) K. Saito et al.   CROP SCIENCE

Evolutionary Role of Interspecies Hybridization and Genetic Exchanges in Yeasts

(2012) Lucia Morales et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Genetic Control of Seed Shattering in Rice by the APETALA2 Transcription Factor SHATTERING ABORTION1

(2012) Y. Zhou et al.   PLANT CELL

Xyloglucan and Its Biosynthesis

(2012) Olga A. Zabotina   Frontiers in Plant Science

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

A novel hybrid gene prediction method employing protein multiple sequence alignments

(2011) Oliver Keller et al.   BIOINFORMATICS

CNVnator: An approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing

(2011) A. Abyzov et al.   GENOME RESEARCH

The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

(2011) Philippe Lamesch et al.   NUCLEIC ACIDS RESEARCH

Distinct evolutionary patterns of Oryza glaberrima deciphered by genome sequencing and comparative analysis

(2011) Hiroaki Sakai et al.   PLANT JOURNAL

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

(2010) A. McKenna et al.   GENOME RESEARCH

The genetic origin of fragrance in NERICA1

(2010) Maxwell Darko Asante et al.   MOLECULAR BREEDING

Rice structural variation: a comparative analysis of structural variation between rice and three of its closest relatives in the genus Oryza

(2010) Bonnie L. Hurwitz et al.   PLANT JOURNAL

Q-TARO: QTL Annotation Rice Online Database

(2010) Jun-ichi Yonemaru et al.   Rice

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Seed fertility of F1 hybrids between upland rice NERICA cultivars and Oryza sativa L. or O. glaberrima Steud.

(2009) Ryoichi Ikeda et al.   BREEDING SCIENCE

Differential Salinity Tolerance among Oryza glaberrima, Oryza sativa and Their Interspecies Including NERICA

(2009) Simon Kamwele Awala et al.   PLANT PRODUCTION SCIENCE

Next-generation sequencing technologies and their implications for crop genetics and breeding

(2009) Rajeev K. Varshney et al.   TRENDS IN BIOTECHNOLOGY

Grain Qualities and Their Genetic Derivation of 7 New Rice for Africa (NERICA) Varieties

(2008) Masahiro Kishine et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

Plant Receptor-Like Serine Threonine Kinases: Roles in Signaling and Plant Defense

(2008) Ahmed J. Afzal et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Wall associated kinases from plants — an overview

(2008) Vydehi Kanneganti et al.   PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS