PAV markers in Sorghum bicolour: genome pattern, affected genes and pathways, and genetic linkage map construction

Structural variation and genome complexity: is dispensable really dispensable?

(2014) Fabio Marroni et al.   CURRENT OPINION IN PLANT BIOLOGY

Exploration of presence/absence variation and corresponding polymorphic markers in soybean genome

(2014) Yufeng Wang et al.   Journal of Integrative Plant Biology

High presence/absence gene variability in defense-related gene clusters of Cucumis melo

(2013) Víctor M González et al.   BMC GENOMICS

Genome-wide InDel marker system for application in rice breeding and mapping studies

(2013) Dong-Hong Wu et al.   EUPHYTICA

Genome-wide patterns of large-size presence/absence variants in sorghum

(2013) Li-Min Zhang et al.   Journal of Integrative Plant Biology

Presence–Absence Variation in A. thaliana Is Primarily Associated with Genomic Signatures Consistent with Relaxed Selective Constraints

(2013) Stephen J. Bush et al.   MOLECULAR BIOLOGY AND EVOLUTION

High-throughput genomics in sorghum: from whole-genome resequencing to a SNP screening array

(2013) Wubishet A. Bekele et al.   PLANT BIOTECHNOLOGY JOURNAL

Transposon Variants and Their Effects on Gene Expression in Arabidopsis

(2013) Xi Wang et al.   PLoS Genetics

Variation of presence/absence genes among Arabidopsis populations

(2012) Shengjun Tan et al.   BMC EVOLUTIONARY BIOLOGY

QTLs for Energy-related Traits in a Sweet × Grain Sorghum [ (L.) Moench] Mapping Population

(2012) T. J. Felderhoff et al.   CROP SCIENCE

Identification of QTLs for eight agronomically important traits using an ultra-high-density map based on SNPs generated from high-throughput sequencing in sorghum under contrasting photoperiods

(2012) Guihua Zou et al.   JOURNAL OF EXPERIMENTAL BOTANY

Structural Variants in the Soybean Genome Localize to Clusters of Biotic Stress-Response Genes

(2012) L. K. McHale et al.   PLANT PHYSIOLOGY

Genetic Structure, Linkage Disequilibrium and Signature of Selection in Sorghum: Lessons from Physically Anchored DArT Markers

(2012) Sophie Bouchet et al.   PLoS One

Integration of Two Diploid Potato Linkage Maps with the Potato Genome Sequence

(2012) Kimberly J. Felcher et al.   PLoS One

Development of a Large SNP Genotyping Array and Generation of High-Density Genetic Maps in Tomato

(2012) Sung-Chur Sim et al.   PLoS One

Sequence-based characterization of structural variation in the mouse genome

(2011) Binnaz Yalcin et al.   NATURE

Multiple reference genomes and transcriptomes for Arabidopsis thaliana

(2011) Xiangchao Gan et al.   NATURE

Mapping copy number variation by population-scale genome sequencing

(2011) Ryan E. Mills et al.   NATURE

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

A Large Maize (Zea mays L.) SNP Genotyping Array: Development and Germplasm Genotyping, and Genetic Mapping to Compare with the B73 Reference Genome

(2011) Martin W. Ganal et al.   PLoS One

Integrating sorghum whole genome sequence information with a compendium of sorghum QTL studies reveals uneven distribution of QTL and of gene-rich regions with significant implications for crop improvement

(2011) E. S. Mace et al.   THEORETICAL AND APPLIED GENETICS

Construction of a high density integrated genetic map for cucumber (Cucumis sativus L.)

(2011) Wei-Wei Zhang et al.   THEORETICAL AND APPLIED GENETICS

Genome-wide patterns of genetic variation in sweet and grain sorghum (Sorghum bicolor)

(2011) Lei-Ying Zheng et al.   GENOME BIOLOGY

Pervasive gene content variation and copy number variation in maize and its undomesticated progenitor

(2010) R. A. Swanson-Wagner et al.   GENOME RESEARCH

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

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

agriGO: a GO analysis toolkit for the agricultural community

(2010) Zhou Du et al.   NUCLEIC ACIDS RESEARCH

A triptych of the evolution of plant transposable elements

(2010) Maud I. Tenaillon et al.   TRENDS IN PLANT SCIENCE

Widespread Gene Conversion in Centromere Cores

(2010) Jinghua Shi et al.   PLOS BIOLOGY

Copy Number Variation in Human Health, Disease, and Evolution

(2009) Feng Zhang et al.   Annual Review of Genomics and Human Genetics

SOAP2: an improved ultrafast tool for short read alignment

(2009) R. Li et al.   BIOINFORMATICS

BioMart – biological queries made easy

(2009) Damian Smedley et al.   BMC GENOMICS

A consensus genetic map of sorghum that integrates multiple component maps and high-throughput Diversity Array Technology (DArT) markers

(2009) Emma S Mace et al.   BMC PLANT BIOLOGY

Computational approaches and software tools for genetic linkage map estimation in plants

(2009) J. Cheema et al.   BRIEFINGS IN BIOINFORMATICS

Sequence and structural variation in a human genome uncovered by short-read, massively parallel ligation sequencing using two-base encoding

(2009) K. J. McKernan et al.   GENOME RESEARCH

The Sorghum bicolor genome and the diversification of grasses

(2009) Andrew H. Paterson et al.   NATURE

Origins and functional impact of copy number variation in the human genome

(2009) Donald F. Conrad et al.   NATURE

Mechanisms of change in gene copy number

(2009) P. J. Hastings et al.   NATURE REVIEWS GENETICS

Genome sequence comparison of Col and Ler lines reveals the dynamic nature of Arabidopsis chromosomes

(2009) Piotr A. Ziolkowski et al.   NUCLEIC ACIDS RESEARCH

Maize Inbreds Exhibit High Levels of Copy Number Variation (CNV) and Presence/Absence Variation (PAV) in Genome Content

(2009) Nathan M. Springer et al.   PLoS Genetics

DArT markers: diversity analyses and mapping in Sorghum bicolor

(2008) Emma S Mace et al.   BMC GENOMICS

Recurrent Deletion and Gene Presence/Absence Polymorphism: Telomere Dynamics Dominate Evolution at the Tip of 3L in Drosophila melanogaster and D. simulans

(2008) Andrew D. Kern et al.   GENETICS

High outcrossing rates in fields with mixed sorghum landraces: how are landraces maintained?

(2008) A Barnaud et al.   HEREDITY

Salmonella Serovar Identification Using PCR-Based Detection of Gene Presence and Absence

(2008) N. Arrach et al.   JOURNAL OF CLINICAL MICROBIOLOGY

GGT 2.0: Versatile Software for Visualization and Analysis of Genetic Data

(2008) Ralph van Berloo   JOURNAL OF HEREDITY

Mapping and sequencing of structural variation from eight human genomes

(2008) Jeffrey M. Kidd et al.   NATURE