Accurate Allele Frequencies from Ultra-low Coverage Pool-Seq Samples in Evolve-and-Resequence Experiments

Rapid seasonal evolution in innate immunity of wild Drosophila melanogaster

(2018) Emily L. Behrman et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Drosophila simulans : A Species with Improved Resolution in Evolve and Resequence Studies

(2017) Neda Barghi et al.   G3-Genes Genomes Genetics

Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data

(2016) Melanie Schirmer et al.   BMC BIOINFORMATICS

Reconstruction of Haplotype-Blocks Selected during Experimental Evolution

(2016) Susanne U. Franssen et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Thousand Fly Genomes: An ExpandedDrosophilaGenome Nexus

(2016) Justin B. Lack et al.   MOLECULAR BIOLOGY AND EVOLUTION

CeNDR, theCaenorhabditis elegansnatural diversity resource

(2016) Daniel E. Cook et al.   NUCLEIC ACIDS RESEARCH

Ancestral population reconstitution from isofemale lines as a tool for experimental evolution

(2016) Pierre Nouhaud et al.   Ecology and Evolution

Power Analysis of Artificial Selection Experiments Using Efficient Whole Genome Simulation of Quantitative Traits

(2015) Darren Kessner et al.   GENETICS

Whole-Genome Resequencing of Experimental Populations Reveals Polygenic Basis of Egg-Size Variation inDrosophila melanogaster

(2015) Aashish R. Jha et al.   MOLECULAR BIOLOGY AND EVOLUTION

Elucidating the molecular architecture of adaptation via evolve and resequence experiments

(2015) Anthony Long et al.   NATURE REVIEWS GENETICS

Validation of Pooled Whole-Genome Re-Sequencing in Arabidopsis lyrata

(2015) Marco Fracassetti et al.   PLoS One

Power Analysis of Artificial Selection Experiments Using Efficient Whole Genome Simulation of Quantitative Traits

(2015) Darren Kessner et al.   GENETICS

Inexpensive Multiplexed Library Preparation for Megabase-Sized Genomes

(2015) Michael Baym et al.   PLoS One

Accurate estimation of haplotype frequency from pooled sequencing data and cost-effective identification of rare haplotype carriers by overlapping pool sequencing

(2014) Chang-Chang Cao et al.   BIOINFORMATICS

Population-Genetic Inference from Pooled-Sequencing Data

(2014) Michael Lynch et al.   Genome Biology and Evolution

Natural variation in genome architecture among 205 Drosophila melanogaster Genetic Reference Panel lines

(2014) W. Huang et al.   GENOME RESEARCH

Combining experimental evolution with next-generation sequencing: a powerful tool to study adaptation from standing genetic variation

(2014) C Schlötterer et al.   HEREDITY

The Power to Detect Quantitative Trait Loci Using Resequenced, Experimentally Evolved Populations of Diploid, Sexual Organisms

(2014) James G. Baldwin-Brown et al.   MOLECULAR BIOLOGY AND EVOLUTION

Standing Genetic Variation Drives Repeatable Experimental Evolution in Outcrossing Populations of Saccharomyces cerevisiae

(2014) Molly K. Burke et al.   MOLECULAR BIOLOGY AND EVOLUTION

Parallel Genome-Wide Fixation of Ancestral Alleles in Partially Outcrossing Experimental Populations of Caenorhabditis elegans

(2014) C. H. Chandler   G3-Genes Genomes Genetics

forqs: forward-in-time simulation of recombination, quantitative traits and selection

(2013) Darren Kessner et al.   BIOINFORMATICS

Maximum-parsimony haplotype frequencies inference based on a joint constrained sparse representation of pooled DNA

(2013) Guido H Jajamovich et al.   BMC BIOINFORMATICS

Maximum Likelihood Estimation of Frequencies of Known Haplotypes from Pooled Sequence Data

(2013) D. Kessner et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Guide for the Design of Evolve and Resequencing Studies

(2013) Robert Kofler et al.   MOLECULAR BIOLOGY AND EVOLUTION

Investigating Natural Variation in Drosophila Courtship Song by the Evolve and Resequence Approach

(2012) T. L. Turner et al.   GENETICS

Adaptation ofDrosophilato a novel laboratory environment reveals temporally heterogeneous trajectories of selected alleles

(2012) PABLO OROZCO-terWENGEL et al.   MOLECULAR ECOLOGY

Evidence of widespread selection on standing variation in Europe at height-associated SNPs

(2012) Michael C Turchin et al.   NATURE GENETICS

Empirical Validation of Pooled Whole Genome Population Re-Sequencing in Drosophila melanogaster

(2012) Yuan Zhu et al.   PLoS One

LDx: Estimation of Linkage Disequilibrium from High-Throughput Pooled Resequencing Data

(2012) Alison F. Feder et al.   PLoS One

How does adaptation sweep through the genome? Insights from long-term selection experiments

(2012) M. K. Burke   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Many Landscapes of Recombination in Drosophila melanogaster

(2012) Josep M. Comeron et al.   PLoS Genetics

Quantifying Selection Acting on a Complex Trait Using Allele Frequency Time Series Data

(2011) C. J. R. Illingworth et al.   MOLECULAR BIOLOGY AND EVOLUTION

PoolHap: Inferring Haplotype Frequencies from Pooled Samples by Next Generation Sequencing

(2011) Quan Long et al.   PLoS One

Genomic Differentiation Between Temperate and Tropical Australian Populations of Drosophila melanogaster

(2010) B. Kolaczkowski et al.   GENETICS

Genome-wide analysis of a long-term evolution experiment with Drosophila

(2010) Molly K. Burke et al.   NATURE

Rapid Construction of Empirical RNA Fitness Landscapes

(2010) J. N. Pitt et al.   SCIENCE

Estimating population haplotype frequencies from pooled SNP data using incomplete database information

(2009) M. Pirinen   BIOINFORMATICS

Genome evolution and adaptation in a long-term experiment with Escherichia coli

(2009) Jeffrey E. Barrick et al.   NATURE

Experimental evolution reveals natural selection on standing genetic variation

(2009) Henrique Teotónio et al.   NATURE GENETICS