Microevolution of Duplications and Deletions and Their Impact on Gene Expression in the Nematode Pristionchus pacificus

Large multiallelic copy number variations in humans

(2015) Robert E Handsaker et al.   NATURE GENETICS

The Orphan Gene dauerless Regulates Dauer Development and Intraspecific Competition in Nematodes by Copy Number Variation

(2015) Melanie G. Mayer et al.   PLoS Genetics

Genome-wide variations in a natural isolate of the nematode Caenorhabditis elegans

(2014) Ismael A Vergara et al.   BMC GENOMICS

Opposing Forces of A/T-Biased Mutations and G/C-Biased Gene Conversions Shape the Genome of the NematodePristionchus pacificus

(2014) Andreas M. Weller et al.   GENETICS

Characterization of Genetic Diversity in the NematodePristionchus pacificusfrom Population-Scale Resequencing Data

(2014) Christian Rödelsperger et al.   GENETICS

The Same or Not the Same: Lineage-Specific Gene Expansions and Homology Relationships in Multigene Families in Nematodes

(2014) Gabriel V. Markov et al.   JOURNAL OF MOLECULAR EVOLUTION

Extensive Copy-Number Variation of Young Genes across Stickleback Populations

(2014) Frédéric J. J. Chain et al.   PLoS Genetics

System-wide Rewiring Underlies Behavioral Differences in Predatory and Bacterial-Feeding Nematodes

(2013) Daniel J. Bumbarger et al.   CELL

A Developmental Switch Coupled to the Evolution of Plasticity Acts through a Sulfatase

(2013) Erik J. Ragsdale et al.   CELL

The Draft Genome and Transcriptome of Panagrellus redivivus Are Shaped by the Harsh Demands of a Free-Living Lifestyle

(2013) J. Srinivasan et al.   GENETICS

Natural variation in chemosensation: lessons from an island nematode

(2013) Angela McGaughran et al.   Ecology and Evolution

Divergent gene expression in the conserved dauer stage of the nematodes Pristionchus pacificus and Caenorhabditis elegans

(2012) Amit Sinha et al.   BMC GENOMICS

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Computational archaeology of the Pristionchus pacificus genome reveals evidence of horizontal gene transfers from insects

(2011) Christian Rödelsperger et al.   BMC EVOLUTIONARY BIOLOGY

Horizontal gene transfer of microbial cellulases into nematode genomes is associated with functional assimilation and gene turnover

(2011) Werner E Mayer et al.   BMC EVOLUTIONARY BIOLOGY

Copy-Number Variation: The Balance between Gene Dosage and Expression in Drosophila melanogaster

(2011) Jun Zhou et al.   Genome Biology and Evolution

The draft genome of the parasitic nematode Trichinella spiralis

(2011) Makedonka Mitreva et al.   NATURE GENETICS

The evolutionary origin of orphan genes

(2011) Diethard Tautz et al.   NATURE REVIEWS GENETICS

Copy number variation in the genomes of twelve natural isolates of Caenorhabditis elegans

(2010) Jason S Maydan et al.   BMC GENOMICS

Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads

(2010) G. Lunter et al.   GENOME RESEARCH

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

(2010) A. McKenna et al.   GENOME RESEARCH

CYNTENATOR: Progressive Gene Order Alignment of 17 Vertebrate Genomes

(2010) Christian Rödelsperger et al.   PLoS One

Dosage Sensitivity Shapes the Evolution of Copy-Number Varied Regions

(2010) Benjamin Schuster-Böckler et al.   PLoS One

Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads

(2009) K. Ye et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

CNV-seq, a new method to detect copy number variation using high-throughput sequencing

(2009) Chao Xie et al.   BMC BIOINFORMATICS

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

(2009) Donald F. Conrad et al.   NATURE

Specificity of the innate immune system and diversity of C-type lectin domain (CTLD) proteins in the nematode Caenorhabditis elegans

(2008) Hinrich Schulenburg et al.   IMMUNOBIOLOGY

The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism

(2008) Christoph Dieterich et al.   NATURE GENETICS