Related references
Note: Only part of the references are listed.A 1.7-Mb chromosomal inversion downstream of aPpOFP1gene is responsible for flat fruit shape in peach
Hui Zhou et al.
PLANT BIOTECHNOLOGY JOURNAL (2021)
Genome structure variation analyses of peach reveal population dynamics and a 1.67 Mb causal inversion for fruit shape
Jiantao Guan et al.
GENOME BIOLOGY (2021)
Structural variation in the sequencing era
Steve S. Ho et al.
NATURE REVIEWS GENETICS (2020)
A Domestication-Associated Gene GmPRR3b Regulates the Circadian Clock and Flowering Time in Soybean
Cong Li et al.
MOLECULAR PLANT (2020)
Patterns of somatic structural variation in human cancer genomes
Yilong Li et al.
NATURE (2020)
Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer
Kadir C. Akdemir et al.
NATURE GENETICS (2020)
Chromosome-level assemblies of multiple Arabidopsis genomes reveal hotspots of rearrangements with altered evolutionary dynamics
Wen-Biao Jiao et al.
NATURE COMMUNICATIONS (2020)
Mapping and characterization of structural variation in 17,795 human genomes
Haley J. Abel et al.
NATURE (2020)
Genome-wide selection and genetic improvement during modern maize breeding
Baobao Wang et al.
NATURE GENETICS (2020)
Pan-Genome of Wild and Cultivated Soybeans
Yucheng Liu et al.
CELL (2020)
Major Impacts of Widespread Structural Variation on Gene Expression and Crop Improvement in Tomato
Michael Alonge et al.
CELL (2020)
Whole-genome resequencing of wild and domestic sheep identifies genes associated with morphological and agronomic traits
Xin Li et al.
NATURE COMMUNICATIONS (2020)
An integrated peach genome structural variation map uncovers genes associated with fruit traits
Jian Guo et al.
GENOME BIOLOGY (2020)
Genomic Analysis in the Age of Human Genome Sequencing
Tuuli Lappalainen et al.
CELL (2019)
Fine-Scale Characterization of Genomic Structural Variation in the Human Genome Reveals Adaptive and Biomedically Relevant Hotspots
Yen-Lung Lin et al.
GENOME BIOLOGY AND EVOLUTION (2019)
Serial genomic inversions induce tissue-specific architectural stripes, gene misexpression and congenital malformations
Katerina Kraft et al.
NATURE CELL BIOLOGY (2019)
The Genomic Complexity of a Large Inversion in Great Tits
Vinicius H. da Silva et al.
GENOME BIOLOGY AND EVOLUTION (2019)
Structural variants in 3000 rice genomes
Roven Rommel Fuentes et al.
GENOME RESEARCH (2019)
Drought Tolerance of Navajo and Lovell Peach Trees: Precision Water Stress Using Automated Weighing Lysimeters
Will Wheeler et al.
HORTSCIENCE (2019)
Comparison Between Flat and Round Peaches, Genomic Evidences of Heterozygosity Events
Qiuping Tan et al.
FRONTIERS IN PLANT SCIENCE (2019)
Prunus genetics and applications after de novo genome sequencing: achievements and prospects
Maria Jose Aranzana et al.
HORTICULTURE RESEARCH (2019)
Genome assembly of a tropical maize inbred line provides insights into structural variation and crop improvement
Ning Yang et al.
NATURE GENETICS (2019)
Multi-platform discovery of haplotype-resolved structural variation in human genomes
Mark J. P. Chaisson et al.
NATURE COMMUNICATIONS (2019)
Comprehensive evaluation and characterisation of short read general-purpose structural variant calling software
Daniel L. Cameron et al.
NATURE COMMUNICATIONS (2019)
Extensive intraspecific gene order and gene structural variations in upland cotton cultivars
Zhaoen Yang et al.
NATURE COMMUNICATIONS (2019)
Resequencing of 414 cultivated and wild watermelon accessions identifies selection for fruit quality traits
Shaogui Guo et al.
NATURE GENETICS (2019)
Assembly of chromosome-scale contigs by efficiently resolving repetitive sequences with long reads
Huilong Du et al.
NATURE COMMUNICATIONS (2019)
polyDFEv2.0: testing for invariance of the distribution of fitness effects within and across species
Paula Tataru et al.
BIOINFORMATICS (2019)
Detection and application of genome-wide variations in peach for association and genetic relationship analysis
Liping Guan et al.
BMC GENETICS (2019)
OrthoFinder: phylogenetic orthology inference for comparative genomics
David M. Emms et al.
GENOME BIOLOGY (2019)
The population genetics of structural variants in grapevine domestication
Yongfeng Zhou et al.
NATURE PLANTS (2019)
Paragraph: a graph-based structural variant genotyper for short-read sequence data
Sai Chen et al.
GENOME BIOLOGY (2019)
Minimap2: pairwise alignment for nucleotide sequences
Heng Li
BIOINFORMATICS (2018)
fastp: an ultra-fast all-in-one FASTQ preprocessor
Shifu Chen et al.
BIOINFORMATICS (2018)
Fast characterization of segmental duplications in genome assemblies
Ibrahim Numanagic et al.
BIOINFORMATICS (2018)
nplnv: accurate detection and genotyping of inversions using long read sub-alignment
Haojing Shao et al.
BMC BIOINFORMATICS (2018)
Integrative genomics approaches validate PpYUC11-like as candidate gene for the stony hard trait in peach (P. persica L. Batsch)
Marco Cirilli et al.
BMC PLANT BIOLOGY (2018)
Structural variation in the 3D genome
Malte Spielmann et al.
NATURE REVIEWS GENETICS (2018)
Linked genetic variation and not genome structure causes widespread differential expression associated with chromosomal inversions
Iskander Said et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2018)
High-resolution spatiotemporal transcriptome mapping of tomato fruit development and ripening
Yoshihito Shinozaki et al.
NATURE COMMUNICATIONS (2018)
MUMmer4: A fast and versatile genome alignment system
Guillaume Marcais et al.
PLOS COMPUTATIONAL BIOLOGY (2018)
Comparative Transcriptome and Microscopy Analyses Provide Insights into Flat Shape Formation in Peach (Prunus persica)
Jian Guo et al.
FRONTIERS IN PLANT SCIENCE (2018)
Local Inversion Heterozygosity Alters Recombination throughout the Genome
K. Nicole Crown et al.
CURRENT BIOLOGY (2018)
High-density multi-population consensus genetic linkage map for peach
Cassia da Silva Linge et al.
PLOS ONE (2018)
Genome re-sequencing reveals the evolutionary history of peach fruit edibility
Yang Yu et al.
NATURE COMMUNICATIONS (2018)
A common genetic mechanism underlies morphological diversity in fruits and other plant organs
Shan Wu et al.
NATURE COMMUNICATIONS (2018)
Complex structural variants in Mendelian disorders: identification and breakpoint resolution using short- and long-read genome sequencing
Alba Sanchis-Juan et al.
GENOME MEDICINE (2018)
Demography and its effects on genomic variation in crop domestication
Brandon S. Gaut et al.
NATURE PLANTS (2018)
Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation
Sergey Koren et al.
GENOME RESEARCH (2017)
Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation
Punna Ramu et al.
NATURE GENETICS (2017)
The impact of structural variation on human gene expression
Colby Chiang et al.
NATURE GENETICS (2017)
Evolutionary genomics of grape (&ITVitis vinifera&IT ssp &ITvinifera&IT) domestication
Yongfeng Zhou et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2017)
Transient structural variations have strong effects on quantitative traits and reproductive isolation in fission yeast
Daniel C. Jeffares et al.
NATURE COMMUNICATIONS (2017)
The Effect of Common Inversion Polymorphisms In(2L)t and In(3R)Mo on Patterns of Transcriptional Variation in Drosophila melanogaster
Erik Lavington et al.
G3-GENES GENOMES GENETICS (2017)
A deletion affecting an LRR-RLK gene co-segregates with the fruit flat shape trait in peach
Elena Lopez-Girona et al.
SCIENTIFIC REPORTS (2017)
The Peach v2.0 release: high-resolution linkage mapping and deep resequencing improve chromosome-scale assembly and contiguity
Ignazio Verde et al.
BMC GENOMICS (2017)
Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications
Xiaoyu Chen et al.
BIOINFORMATICS (2016)
Genotype Imputation with Millions of Reference Samples
Brian L. Browning et al.
AMERICAN JOURNAL OF HUMAN GENETICS (2016)
Copy number variation of a gene cluster encoding endopolygalacturonase mediates flesh texture and stone adhesion in peach
Chao Gu et al.
JOURNAL OF EXPERIMENTAL BOTANY (2016)
OsSPL13 controls grain size in cultivated rice
Lizhen Si et al.
NATURE GENETICS (2016)
Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown
Mihaela Pertea et al.
NATURE PROTOCOLS (2016)
Identifying SNP markers tightly associated with six major genes in peach [Prunus persica (L.) Batsch] using a high-density SNP array with an objective of marker-assisted selection (MAS)
Patrick Lambert et al.
TREE GENETICS & GENOMES (2016)
Genome-wide association study of 12 agronomic traits in peach
Ke Cao et al.
NATURE COMMUNICATIONS (2016)
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
Felipe A. Simao et al.
BIOINFORMATICS (2015)
Copy number variation at the GL7 locus contributes to grain size diversity in rice
Yuexing Wang et al.
NATURE GENETICS (2015)
Genome-Wide Mapping of Structural Variations Reveals a Copy Number Variant That Determines Reproductive Morphology in Cucumber
Zhonghua Zhang et al.
PLANT CELL (2015)
Peaches Preceded Humans: Fossil Evidence from SW China
Tao Su et al.
SCIENTIFIC REPORTS (2015)
Functional Impact and Evolution of a Novel Human Polymorphic Inversion That Disrupts a Gene and Creates a Fusion Transcript
Marta Puig et al.
PLOS GENETICS (2015)
Whole-Genome Analysis of Diversity and SNP-Major Gene Association in Peach Germplasm
Diego Micheletti et al.
PLOS ONE (2015)
InterProScan 5: genome-scale protein function classification
Philip Jones et al.
BIOINFORMATICS (2014)
The impact of chromosomal rearrangements on regulation of gene expression
Louise Harewood et al.
HUMAN MOLECULAR GENETICS (2014)
Quantitative Trait Loci (QTL) and Mendelian Trait Loci (MTL) Analysis in Prunus: a Breeding Perspective and Beyond
Juan Alfonso Salazar et al.
PLANT MOLECULAR BIOLOGY REPORTER (2014)
A Unique Mutation in a MYB Gene Cosegregates with the Nectarine Phenotype in Peach
Elisa Vendramin et al.
PLOS ONE (2014)
Archaeological Evidence for Peach (Prunus persica) Cultivation and Domestication in China
Yunfei Zheng et al.
PLOS ONE (2014)
Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement
Bruce J. Walker et al.
PLOS ONE (2014)
Patterns of genetic variation across inversions: geographic variation in the In(2L)t inversion in populations of Drosophila melanogaster from eastern Australia
W. Jason Kennington et al.
BMC EVOLUTIONARY BIOLOGY (2013)
Combining linkage and association mapping to search for markers linked to the flat fruit character in peach
R. Picanol et al.
EUPHYTICA (2013)
The genome of the pear (Pyrus bretschneideri Rehd.)
Jun Wu et al.
GENOME RESEARCH (2013)
The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution
Ignazio Verde et al.
NATURE GENETICS (2013)
Phenotypic impact of genomic structural variation: insights from and for human disease
Joachim Weischenfeldt et al.
NATURE REVIEWS GENETICS (2013)
Three distinct mutational mechanisms acting on a single gene underpin the origin of yellow flesh in peach
Rachele Falchi et al.
PLANT JOURNAL (2013)
Sorbitol dehydrogenase is a cytosolic protein required for sorbitol metabolism in Arabidopsis thaliana
Maria Francisca Aguayo et al.
PLANT SCIENCE (2013)
DELLY: structural variant discovery by integrated paired-end and split-read analysis
Tobias Rausch et al.
BIOINFORMATICS (2012)
MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity
Yupeng Wang et al.
NUCLEIC ACIDS RESEARCH (2012)
clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters
Guangchuang Yu et al.
OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY (2012)
Retrotransposons Control Fruit-Specific, Cold-Dependent Accumulation of Anthocyanins in Blood Oranges
Eugenio Butelli et al.
PLANT CELL (2012)
The variant call format and VCFtools
Petr Danecek et al.
BIOINFORMATICS (2011)
MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects
Carson Holt et al.
BMC BIOINFORMATICS (2011)
Chromosome-wide linkage disequilibrium caused by an inversion polymorphism in the white-throated sparrow (Zonotrichia albicollis)
L. Y. Huynh et al.
HEREDITY (2011)
Multiple reference genomes and transcriptomes for Arabidopsis thaliana
Xiangchao Gan et al.
NATURE (2011)
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
Aaron McKenna et al.
GENOME RESEARCH (2010)
Variance component model to account for sample structure in genome-wide association studies
Hyun Min Kang et al.
NATURE GENETICS (2010)
ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data
Kai Wang et al.
NUCLEIC ACIDS RESEARCH (2010)
Selection of reliable reference genes for gene expression studies in peach using real-time PCR
Zhaoguo Tong et al.
BMC MOLECULAR BIOLOGY (2009)
Evolving enhancer-promoter interactions within the tinman complex of the flour beetle, Tribolium castaneum
Jessica Doran Cande et al.
DEVELOPMENT (2009)
Fast model-based estimation of ancestry in unrelated individuals
David H. Alexander et al.
GENOME RESEARCH (2009)
FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix
Morgan N. Price et al.
MOLECULAR BIOLOGY AND EVOLUTION (2009)
Deletion in a gene associated with grain size increased yields during rice domestication
Ayahiko Shomura et al.
NATURE GENETICS (2008)
Multiple models for Rosaceae genomics
Vladimir Shulaev et al.
PLANT PHYSIOLOGY (2008)
A retrotransposon-mediated gene duplication underlies morphological variation of tomato fruit
Han Xiao et al.
SCIENCE (2008)
The mechanism of human nonhomologous DNA end joining
Michael R. Lieber
JOURNAL OF BIOLOGICAL CHEMISTRY (2008)
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla
Olivier Jaillon et al.
NATURE (2007)
Development of a second-generation genetic linkage map for peach [Prunus persica (L.) Batsch] and characterization of morphological traits affecting flower and fruit
E. Dirlewanger et al.
TREE GENETICS & GENOMES (2007)
Principal components analysis corrects for stratification in genome-wide association studies
Alkes L. Price et al.
NATURE GENETICS (2006)
Hotspots for copy number variation in chimpanzees and humans
George H. Perry et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)
A highly efficient transformation protocol for Micro-Tom, a model cultivar for tomato functional genomics
HJ Sun et al.
PLANT AND CELL PHYSIOLOGY (2006)
Repbase update, a database of eukaryotic repetitive elements
J Jurka et al.
CYTOGENETIC AND GENOME RESEARCH (2005)
AUGUSTUS: a web server for gene finding in eukaryotes
M Stanke et al.
NUCLEIC ACIDS RESEARCH (2004)
Retrotransposon-induced mutations in grape skin color
S Kobayashi et al.
SCIENCE (2004)
A new class of regulatory genes underlying the cause of pear-shaped tomato fruit
JP Liu et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)
Selection in the evolution of gene duplications
Fyodor A. Kondrashov et al.
GENOME BIOLOGY (2002)
Analysis of relative gene expression data using real-time quantitative PCR and the 2-ΔΔCT method
KJ Livak et al.
METHODS (2001)
Share Paper
