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The life cycle of Drosophila orphan genes

eLife, 2014-02, Vol.3, p.e01311

2014

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PoPoolation: a toolbox for population genetic analysis of next generation sequencing data from pooled individuals

PloS one, 2011-01, Vol.6 (1), p.e15925-e15925

2011

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Estimating the Effective Population Size from Temporal Allele Frequency Changes in Experimental Evolution

Genetics (Austin), 2016-10, Vol.204 (2), p.723-735

2016

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Inference of genomic landscapes using ordered Hidden Markov Models with emission densities (oHMMed)

BMC bioinformatics, 2024-04, Vol.25 (1), p.151-151, Article 151

2024

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Patterns of positive selection in six Mammalian genomes

PLoS genetics, 2008-08, Vol.4 (8), p.e1000144-e1000144

2008

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Accurate Detection of Convergent Mutations in Large Protein Alignments With ConDor

Genome biology and evolution, 2024-04, Vol.16 (4)

2024

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Novel Insights into the Landscape of Crossover and Noncrossover Events in Rhesus Macaques (Macaca mulatta)

Genome biology and evolution, 2024-01, Vol.16 (1)

2024

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Genetic diversity of species Fowl aviadenovirus D and Fowl aviadenovirus E

Journal of general virology, 2016-09, Vol.97 (9), p.2323-2332

2016

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Conservation, loss, and redeployment of Wnt ligands in protostomes: implications for understanding the evolution of segment formation

BMC evolutionary biology, 2010-12, Vol.10, p.374

2010

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The first whole genome sequence of a Fowl adenovirus B strain enables interspecies comparisons within the genus Aviadenovirus

Veterinary microbiology, 2013-09, Vol.166 (1-2), p.250-256

2013

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Evaluation of different reference based annotation strategies using RNA-Seq - a case study in Drososphila pseudoobscura

PloS one, 2012-10, Vol.7 (10), p.e46415-e46415

2012

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Consistency and identifiability of the polymorphism-aware phylogenetic models

Journal of theoretical biology, 2020-02, Vol.486, p.110074-110074, Article 110074

2020

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Polymorphism-Aware Models in RevBayes: Species Trees, Disentangling Balancing Selection, and GC-Biased Gene Conversion

Molecular biology and evolution, 2024-07, Vol.41 (7)

2024

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Polymorphism-aware models in RevBayes: Species trees, disentangling Balancing Selection and CG-biased gene conversion

Molecular biology and evolution, 2024-07

2024

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Selection Acting on Genomes

Methods in molecular biology (Clifton, N.J.), 2019, Vol.1910, p.373

2019

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The Patterns of Codon Usage between Chordates and Arthropods are Different but Co-evolving with Mutational Biases

Molecular biology and evolution, 2024-05, Vol.41 (5)

2024

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Positive selection on apoptosis related genes

FEBS letters, 2010-02, Vol.584 (3), p.469-476

2010

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Durga: an R package for effect size estimation and visualization

Journal of evolutionary biology, 2024-06

2024

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Population genomic analysis reveals a rich speciation and demographic history of orang-utans (Pongo pygmaeus and Pongo abelii)

PloS one, 2013-10, Vol.8 (10), p.e77175-e77175

2013

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PoMo: An Allele Frequency-Based Approach for Species Tree Estimation

Systematic biology, 2015-11, Vol.64 (6), p.1018-1031

2015

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Bait‐ER: A Bayesian method to detect targets of selection in Evolve‐and‐Resequence experiments

Journal of evolutionary biology, 2023-01, Vol.36 (1), p.29-44

2023

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XRate: a fast prototyping, training and annotation tool for phylo-grammars

BMC bioinformatics, 2006-10, Vol.7 (1), p.428-428, Article 428

2006

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An Empirical Codon Model for Protein Sequence Evolution

Molecular biology and evolution, 2007-07, Vol.24 (7), p.1464-1479

2007

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Investigating Protein-Coding Sequence Evolution with Probabilistic Codon Substitution Models

Molecular biology and evolution, 2009-02, Vol.26 (2), p.255-271

2009

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Markovian and Non-Markovian Protein Sequence Evolution: Aggregated Markov Process Models

Journal of molecular biology, 2011-08, Vol.411 (4), p.910-923

2011

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The life cycle of Drosophila orphan genes

PoPoolation: a toolbox for population genetic analysis of next generation sequencing data from pooled individuals

Estimating the Effective Population Size from Temporal Allele Frequency Changes in Experimental Evolution

Inference of genomic landscapes using ordered Hidden Markov Models with emission densities (oHMMed)

Patterns of positive selection in six Mammalian genomes

Accurate Detection of Convergent Mutations in Large Protein Alignments With ConDor

Novel Insights into the Landscape of Crossover and Noncrossover Events in Rhesus Macaques (Macaca mulatta)

Genetic diversity of species Fowl aviadenovirus D and Fowl aviadenovirus E

Conservation, loss, and redeployment of Wnt ligands in protostomes: implications for understanding the evolution of segment formation

The first whole genome sequence of a Fowl adenovirus B strain enables interspecies comparisons within the genus Aviadenovirus

Evaluation of different reference based annotation strategies using RNA-Seq - a case study in Drososphila pseudoobscura

Consistency and identifiability of the polymorphism-aware phylogenetic models

Polymorphism-Aware Models in RevBayes: Species Trees, Disentangling Balancing Selection, and GC-Biased Gene Conversion

Polymorphism-aware models in RevBayes: Species trees, disentangling Balancing Selection and CG-biased gene conversion

Selection Acting on Genomes

The Patterns of Codon Usage between Chordates and Arthropods are Different but Co-evolving with Mutational Biases

Positive selection on apoptosis related genes

Durga: an R package for effect size estimation and visualization

Population genomic analysis reveals a rich speciation and demographic history of orang-utans (Pongo pygmaeus and Pongo abelii)

PoMo: An Allele Frequency-Based Approach for Species Tree Estimation

Bait‐ER: A Bayesian method to detect targets of selection in Evolve‐and‐Resequence experiments

XRate: a fast prototyping, training and annotation tool for phylo-grammars

An Empirical Codon Model for Protein Sequence Evolution

Investigating Protein-Coding Sequence Evolution with Probabilistic Codon Substitution Models

Markovian and Non-Markovian Protein Sequence Evolution: Aggregated Markov Process Models

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