A global analysis of QTLs for expression variations in rice shoots at the early seedling stage.

No abstract is available for this paper.

• Publication year

  2010

• Venue

  The Plant Journal

• Publication date

  2010-09-01

• Fields of study

  Biology, Agricultural and Food Sciences, Medicine

• Identifiers
  DOI 10.1111/j.1365-313X.2010.04303.xPMID 20626655
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Exploratory data analysis

  2018cited by this paper
• Genetic and molecular bases of rice yield.

  2010cited by this paper
• Bimodal gene expression patterns in breast cancer

  2010cited by this paper
• A dynamic gene expression atlas covering the entire life cycle of rice.

  2010cited by this paper
• Quantitative genomics: analyzing intraspecific variation using global gene expression polymorphisms or eQTLs.

  2009cited by this paper
• Single feature polymorphisms between two rice cultivars detected using a median polish method

  2009cited by this paper
• Robust Detection and Genotyping of Single Feature Polymorphisms from Gene Expression Data

  2009cited by this paper
• Mutant Resources in Rice for Functional Genomics of the Grasses[W]

  2009cited by this paper
• High-Resolution Mapping of Gene Expression Using Association in an Outbred Mouse Stock

  2008cited by this paper
• Identifying the molecular basis of QTLs: eQTLs add a new dimension.

  2008cited by this paper
• Mapping Metabolic and Transcript Temporal Switches during Germination in Rice Highlights Specific Transcription Factors and the Role of RNA Instability in the Germination Process1[W][OA]

  2008cited by this paper
• Gene expression quantitative trait locus analysis of 16 000 barley genes reveals a complex pattern of genome-wide transcriptional regulation.

  2008influential reference
• Natural variation in Ghd7 is an important regulator of heading date and yield potential in rice

  2008cited by this paper
• SFP Genotyping From Affymetrix Arrays Is Robust But Largely Detects Cis-acting Expression Regulators

  2007influential reference
• Regulatory network construction in Arabidopsis by using genome-wide gene expression quantitative trait loci

  2007influential reference
• Identifying regions of the wheat genome controlling seed development by mapping expression quantitative trait loci.

  2007cited by this paper
• Global eQTL Mapping Reveals the Complex Genetic Architecture of Transcript-Level Variation in Arabidopsis

  2007influential reference
• PlnTFDB: an integrative plant transcription factor database

  2007cited by this paper
• Discovery of expression QTLs using large-scale transcriptional profiling in human lymphocytes

  2007cited by this paper
• Genetic Regulation of Gene Expression During Shoot Development in Arabidopsis

  2006influential reference
• The TIGR Rice Genome Annotation Resource: improvements and new features

  2006cited by this paper
• High-density haplotyping with microarray-based expression and single feature polymorphism markers in Arabidopsis.

  2006cited by this paper
• Promoter mutations of an essential gene for pollen development result in disease resistance in rice.

  2006cited by this paper
• Genomic Survey of Gene Expression Diversity in Arabidopsis thaliana

  2006cited by this paper
• The landscape of genetic complexity across 5,700 gene expression traits in yeast.

  2005cited by this paper
• Cytokinin Oxidase Regulates Rice Grain Production

  2005cited by this paper
• QTLs for low nitrogen tolerance at seedling stage identified using a recombinant inbred line population derived from an elite rice hybrid

  2005cited by this paper
• Xa26, a gene conferring resistance to Xanthomonas oryzae pv. oryzae in rice, encodes an LRR receptor kinase-like protein.

  2004cited by this paper
• Epistatic interaction between Arabidopsis FRI and FLC flowering time genes generates a latitudinal cline in a life history trait.

  2004cited by this paper
• Comparison of quantitative trait loci controlling seedling characteristics at two seedling stages using rice recombinant inbred lines

  2004cited by this paper
• affy - analysis of Affymetrix GeneChip data at the probe level

  2004influential reference
• Bioconductor: open software development for computational biology and bioinformatics

  2004influential reference
• Genetic inheritance of gene expression in human cell lines.

  2004cited by this paper
• Genome-wide intraspecific DNA-sequence variations in rice.

  2003influential reference
• Genetics of gene expression surveyed in maize, mouse and man

  2003cited by this paper
• A comparison of normalization methods for high density oligonucleotide array data based on variance and bias

  2003cited by this paper
• Natural variation in human gene expression assessed in lymphoblastoid cells

  2003cited by this paper
• The cell cycle and seed germination

  2003cited by this paper
• Molecular dissection of the genetic relationships of source, sink and transport tissue with yield traits in rice

  2003cited by this paper
• Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors

  2003cited by this paper
• The genetic architecture necessary for transgressive segregation is common in both natural and domesticated populations.

  2003cited by this paper
• Comparative analyses of genomic locations and race specificities of loci for quantitative resistance to Pyricularia grisea in rice and barley

  2003cited by this paper
• Genome-Wide Insertional Mutagenesis of Arabidopsis thaliana

  2003cited by this paper
• Single-locus heterotic effects and dominance by dominance interactions can adequately explain the genetic basis of heterosis in an elite rice hybrid

  2003cited by this paper
• Development of enhancer trap lines for functional analysis of the rice genome.

  2003cited by this paper
• R/qtl: QTL Mapping in Experimental Crosses

  2003cited by this paper
• Exploration, normalization, and summaries of high density oligonucleotide array probe level data.

  2003cited by this paper
• Genetic dissection of an elite rice hybrid revealed that heterozygotes are not always advantageous for performance.

  2002cited by this paper
• Genetic Dissection of Transcriptional Regulation in Budding Yeast

  2002cited by this paper
• Analysis of high density expression microarrays with signed-rank call algorithms

  2002influential reference
• Identification of quantitative trait loci and epistatic interactions for plant height and heading date in rice

  2002cited by this paper
• Molecular dissection of seedling-vigor and associated physiological traits in rice

  2002cited by this paper
• New gene for bacterial blight resistance in rice located on chromosome 12 identified from minghui 63, an elite restorer line.

  2002cited by this paper
• Characterization of the main effects, epistatic effects and their environmental interactions of QTLs on the genetic basis of yield traits in rice

  2002cited by this paper
• Genetic Dissection of Transcriptional Regulation in Budding Yeast

  2002cited by this paper
• Mapping quantitative trait loci for milling quality, protein content and color characteristics of rice using a recombinant inbred line population derived from an elite rice hybrid

  2001cited by this paper
• fw2.2: a quantitative trait locus key to the evolution of tomato fruit size.

  2000cited by this paper
• Genetic bases of appearance quality of rice grains in Shanyou 63, an elite rice hybrid

  2000cited by this paper
• T-DNA insertional mutagenesis for functional genomics in rice.

  2000cited by this paper
• Molecular analysis of FRIGIDA, a major determinant of natural variation in Arabidopsis flowering time.

  2000cited by this paper
• The three important traits for cooking and eating quality of rice grains are controlled by a single locus in an elite rice hybrid, Shanyou 63

  1999cited by this paper
• Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.

  1997cited by this paper
• Seed Germination and Dormancy.

  1997cited by this paper
• Importance of epistasis as the genetic basis of heterosis in an elite rice hybrid.

  1997cited by this paper
• A Remark on Algorithm as 181: The W‐Test for Normality

  1995influential reference
• Precision mapping of quantitative trait loci.

  1994cited by this paper
• Theoretical basis for separation of multiple linked gene effects in mapping quantitative trait loci.

  1993cited by this paper
• DNA ligase activity in deteriorated maize embryo axes during germination: a model relating defects in DNA metabolism in seeds to loss of germinability

  1991cited by this paper
• Finding Groups in Data: An Introduction to Cluster Analysis

  1990cited by this paper
• Evolution and the Genetics of Populations, Volume 3: Experimental Results and Evolutionary Deductions

  1977cited by this paper
• Evidence for anti-Burkitt tumour globulins in Burkitt tumour patients and healthy individuals.

  1967cited by this paper
• Processing Data for Outliers

  1953cited by this paper
• Bioinformatics Original Paper Improved Scoring of Functional Groups from Gene Expression Data by Decorrelating Go Graph Structure

  year unknowncited by this paper

• Integrated eQTL mapping approach reveals genomic regions regulating candidate genes of the E8-r3 locus in soybean

  2024cites this paper
• TWAS facilitates gene-scale trait genetic dissection through gene expression, structural variations, and alternative splicing in soybean

  2024cites this paper
• Haplotype mapping of H3K27me3-associated chromatin interactions defines topological regulation of gene silencing in rice.

  2023cites this paper
• Integration of eQTL and Machine Learning Methods to Dissect Causal Genes with Pleiotropic effects in Genetic Regulation Networks of Seed Cotton Yield

  2023cites this paper
• Exploration of eQTLs regulating transcript for internode elongation under deep water treatment employing haplotype network in diverse deep water rice landraces of Assam, India

  2023cites this paper
• OsGELP77, a QTL for broad‐spectrum disease resistance and yield in rice, encodes a GDSL‐type lipase

  2023cites this paper
• Genome- and Transcriptome-wide Association Studies to Discover Candidate Genes for Diverse Root Phenotypes in Cultivated Rice

  2023cites this paper
• High-throughput phenotyping and deep learning to analyze dynamic panicle growth and dissect the genetic architecture of yield formation

  2023cites this paper
• Mapping QTL for Mineral Accumulation and Shoot Dry Biomass in Barley under Different Levels of Zinc Supply

  2023influential citation
• Integration of eQTL and machine learning to dissect causal genes with pleiotropic effects in genetic regulation networks of seed cotton yield.

  2023cites this paper
• Integration of eQTL and GWAS analysis uncovers a genetic regulation of natural ionomic variation in Arabidopsis

  2023cites this paper
• Integration of eQTL Analysis and GWAS Highlights Regulation Networks in Cotton under Stress Condition

  2022cites this paper
• Integrating Phenotypic and Gene Expression Linkage Mapping to Dissect Rust Resistance in Chickling Pea

  2022cites this paper
• Genome‐wide discovery of natural variation in pre‐mRNA splicing and prioritising causal alternative splicing to salt stress response in rice

  2021cites this paper
• A combination of genome‐wide and transcriptome‐wide association studies reveals genetic elements leading to male sterility during high temperature stress in cotton

  2021cites this paper
• Combined GWAS and eQTL analysis uncovers a genetic regulatory network orchestrating the initiation of secondary cell wall development in cotton.

  2020influential citation
• Combination of DNA markers and eQTL information for introgression of multiple salt-tolerance traits in rice

  2020cites this paper
• Genome-wide expression quantitative trait loci studies facilitate isolation of causal genes controlling panicle structure.

  2020cites this paper
• DNA N6-Methyladenosine modification role in transmitted variations from genomic DNA to RNA in Herrania umbratica

  2019cites this paper
• Dynamic patterns of circular and linear RNAs in maize hybrid and parental lines

  2019cites this paper
• Functional Haplotype and eQTL Analyses of Genes Affecting Cadmium Content in Cultivated Rice

  2019cites this paper
• Genome‐wide expression quantitative trait locus analysis in a recombinant inbred line population for trait dissection in peanut

  2019cites this paper
• Chromatin loops associated with active genes and heterochromatin shape rice genome architecture for transcriptional regulation

  2019cites this paper
• Sequencing‐Based Bin Map Construction of a Tomato Mapping Population, Facilitating High‐Resolution Quantitative Trait Loci Detection

  2019cites this paper
• Genomic Basis of Transcriptome Dynamics in Rice under Field Conditions

  2018cites this paper
• Gene regulation and the emergence of phenotypes – a network approach

  2018influential citation
• Complex Relationships between Chromatin Accessibility, Sequence Divergence, and Gene Expression in Arabidopsis thaliana

  2018cites this paper
• Prediction of environmental response in field-grown rice using expression-dynamics-QTL

  2018cites this paper
• Traits-related QTLs and genes and their potential applications in rice improvement under low phosphorus condition

  2018cites this paper
• Regulatory DNA in A. thaliana can tolerate high levels of sequence divergence

  2017cites this paper
• Genome-wide Analysis of Transcriptional Variability in a Large Maize-Teosinte Population.

  2017cites this paper
• Systems genetics reveals a transcriptional network associated with susceptibility in the maize–grey leaf spot pathosystem

  2017cites this paper
• eQTLs Regulating Transcript Variations Associated with Rapid Internode Elongation in Deepwater Rice

  2017cites this paper
• A Review of QTL Mapping in Cotton: Molecular Markers, Mapping Populations and Statistical Methods

  2017cites this paper
• Gene co-expression network connectivity is an important determinant of selective constraint

  2017cites this paper
• Purifying selection provides buffering of the natural variation co-expression network in a forest tree species

  2016cites this paper
• Gene expression analyses help elucidate positive selection in cultivated crops and early seedling responses to thiamethoxam and neighbouring turf grass

  2016cites this paper
• Genetic basis of sRNA quantitative variation analyzed using an experimental population derived from an elite rice hybrid

  2015cites this paper
• Global expression differences and tissue specific expression differences in rice evolution result in two contrasting types of differentially expressed genes

  2015influential citation
• Expression quantitative trait loci infer the regulation of isoflavone accumulation in soybean (Glycine max L. Merr.) seed

  2014cites this paper
• Elucidating the molecular responses of apple rootstock resistant to ARD pathogens: challenges and opportunities for development of genomics-assisted breeding tools

  2014cites this paper
• A high-density SNP genotyping array for rice biology and molecular breeding.

  2014cites this paper
• Molecular characterization of high pI α-amylase and its expression QTL analysis in synthetic wheat RILs

  2014influential citation
• Identification of quantitative trait loci for phosphorus use efficiency traits in rice using a high density SNP map

  2014cites this paper
• Systems genetics: a paradigm to improve discovery of candidate genes and mechanisms underlying complex traits.

  2014cites this paper
• An expression quantitative trait loci-guided co-expression analysis for constructing regulatory network using a rice recombinant inbred line population

  2014cites this paper
• Evidence for selection on gene expression in cultivated rice (Oryza sativa).

  2014cites this paper
• A whole-genome SNP array (RICE6K) for genomic breeding in rice.

  2014cites this paper
• Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism

  2014cites this paper
• Development of genomics-based genotyping platforms and their applications in rice breeding.

  2013cites this paper
• Genotype-by-Environment Interaction and Plasticity: Exploring Genomic Responses of Plants to the Abiotic Environment

  2013cites this paper
• Genomics-Based Breeding Technology

  2013cites this paper
• Genetics and Genomics of Rice

  2013cites this paper
• Genetical Genomics of Plants: From Genotype to Phenotype

  2013cites this paper
• Silicon Era of Carbon-Based Life: Application of Genomics and Bioinformatics in Crop Stress Research

  2013cites this paper
• Insight into Differential Responses of Upland and Paddy Rice to Drought Stress by Comparative Expression Profiling Analysis

  2013influential citation
• Omics-Based Approaches for Rice Improvement

  2013cites this paper
• Genome-wide identification and analysis of Japonica and Indica cultivar-preferred transcripts in rice using 983 Affymetrix array data

  2013cites this paper
• Mendelian and Non-Mendelian Regulation of Gene Expression in Maize

  2013influential citation
• Array-Based High-Throughput DNA Markers and Genotyping Platforms for Cereal Genetics and Genomics

  2013cites this paper
• Barley: omics approaches for abiotic stress tolerance.

  2012cites this paper
• Lessons from eQTL mapping studies: non-coding regions and their role behind natural phenotypic variation in plants.

  2012cites this paper
• Molecular Mechanisms of Fiber Differential Development between G. barbadense and G. hirsutum Revealed by Genetical Genomics

  2012cites this paper
• Expression level polymorphisms: heritable traits shaping natural variation.

  2011cites this paper
• cDNA-AFLP-based genetical genomics in cotton fibers

  2011cites this paper
• Research Advances on Plant Science in China in 2010: Research Advances on Plant Science in China in 2010

  2011cites this paper
• Gains in QTL Detection Using an Ultra-High Density SNP Map Based on Population Sequencing Relative to Traditional RFLP/SSR Markers

  2011influential citation
• Gene Regulatory Network Reconstruction Using Bayesian Networks, the Dantzig Selector, the Lasso and Their Meta-Analysis

  2011cites this paper
• Data-driven assessment of eQTL mapping methods

  2010cites this paper
• Development of Genomics-based Genotyping Platforms and Their Applications in Rice Breeding This Review Comes from a Themed Issue on Genome Studies and Molecular Genetics Development of Genotyping Platforms Identification of Genetic Variations Controlling Rice Agronomic Traits Genomics-assisted Molec

  year unknowncites this paper