Hans Ellegren

Divergence in expression of a singing-related neuroplasticity gene in the brains of 2 Ficedula flycatchers and their hybrids

Wheatcroft, David; Backström, Niclas; Dutoit, Ludovic; McFarlane, S. Eryn et al.

Part of G3, 2025

• DOI for Divergence in expression of a singing-related neuroplasticity gene in the brains of 2 Ficedula flycatchers and their hybrids
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Structural genomic variation in the inbred Scandinavian wolf population contributes to the realized genetic load but is positively affected by immigration

Smeds, Linnea; Huson, Lars S. A.; Ellegren, Hans

Part of Evolutionary Applications, 2024

• DOI for Structural genomic variation in the inbred Scandinavian wolf population contributes to the realized genetic load but is positively affected by immigration
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From high masked to high realized genetic load in inbred Scandinavian wolves

Smeds, Linnéa; Ellegren, Hans

Part of Molecular Ecology, p. 1567-1580, 2023

• DOI for From high masked to high realized genetic load in inbred Scandinavian wolves
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Highly differentiated loci resolve phylogenetic relationships in the Bean Goose complex

Ottenburghs, Jente; Honka, Johanna; Heikkinen, Marja E.; Madsen, Jesper et al.

Part of BMC Ecology and Evolution, 2023

• DOI for Highly differentiated loci resolve phylogenetic relationships in the Bean Goose complex
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Potential for increased connectivity between differentiated wolverine populations

Lansink, G. M. J.; Kleven, O.; Ekblom, R.; Spong, G. et al.

Part of Biological Conservation, 2022

• DOI for Potential for increased connectivity between differentiated wolverine populations
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Divergence in expression of a singing-related neuroplasticity gene in the brains of 2 Ficedula flycatchers and their hybrids

Wheatcroft, David; Backström, Niclas; Dutoit, Ludovic; McFarlane, S. Eryn et al.

Part of G3, 2025

• DOI for Divergence in expression of a singing-related neuroplasticity gene in the brains of 2 Ficedula flycatchers and their hybrids
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Structural genomic variation in the inbred Scandinavian wolf population contributes to the realized genetic load but is positively affected by immigration

Smeds, Linnea; Huson, Lars S. A.; Ellegren, Hans

Part of Evolutionary Applications, 2024

• DOI for Structural genomic variation in the inbred Scandinavian wolf population contributes to the realized genetic load but is positively affected by immigration
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From high masked to high realized genetic load in inbred Scandinavian wolves

Smeds, Linnéa; Ellegren, Hans

Part of Molecular Ecology, p. 1567-1580, 2023

• DOI for From high masked to high realized genetic load in inbred Scandinavian wolves
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Highly differentiated loci resolve phylogenetic relationships in the Bean Goose complex

Ottenburghs, Jente; Honka, Johanna; Heikkinen, Marja E.; Madsen, Jesper et al.

Part of BMC Ecology and Evolution, 2023

• DOI for Highly differentiated loci resolve phylogenetic relationships in the Bean Goose complex
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Potential for increased connectivity between differentiated wolverine populations

Lansink, G. M. J.; Kleven, O.; Ekblom, R.; Spong, G. et al.

Part of Biological Conservation, 2022

• DOI for Potential for increased connectivity between differentiated wolverine populations
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Whole-genome resequencing of temporally stratified samples reveals substantial loss of haplotype diversity in the highly inbred Scandinavian wolf population

Viluma, Agnese; Flagstad, Oystein; Akesson, Mikael; Wikenros, Camilla et al.

Part of Genome Research, p. 449-458, 2022

• DOI for Whole-genome resequencing of temporally stratified samples reveals substantial loss of haplotype diversity in the highly inbred Scandinavian wolf population
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Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs

Chase, Madeline A.; Ellegren, Hans; Mugal, Carina F.

Part of Evolution, p. 2179-2196, 2021

• DOI for Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs
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Genomic inference of contemporary effective population size in a large island population of collared flycatchers (Ficedula albicollis)

Nadachowska-Brzyska, Krystyna; Dutoit, Ludovic; Smeds, Linnea; Kardos, Martin et al.

Part of Molecular Ecology, p. 3965-3973, 2021

• DOI for Genomic inference of contemporary effective population size in a large island population of collared flycatchers (Ficedula albicollis)
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Whole-genome analyses provide no evidence for dog introgression in Fennoscandian wolf populations

Smeds, Linnea; Aspi, Jouni; Berglund, Jonas; Kojola, Ilpo et al.

Part of Evolutionary Applications, p. 721-734, 2021

• DOI for Whole-genome analyses provide no evidence for dog introgression in Fennoscandian wolf populations
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Major population splits coincide with episodes of rapid climate change in a forest-dependent bird

Warmuth, Vera; Burgess, Malcolm D.; Laaksonen, Toni; Manica, Andrea et al.

Part of Proceedings of the Royal Society of London. Biological Sciences, 2021

• DOI for Major population splits coincide with episodes of rapid climate change in a forest-dependent bird
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Recent introgression between Taiga Bean Goose and Tundra Bean Goose results in a largely homogeneous landscape of genetic differentiation

Ottenburghs, Jente; Honka, Johanna; Musken, Gerard J. D. M.; Ellegren, Hans

Part of Heredity, p. 73-84, 2020

• DOI for Recent introgression between Taiga Bean Goose and Tundra Bean Goose results in a largely homogeneous landscape of genetic differentiation
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Tissue-specific patterns of regulatory changes underlying gene expression differences among Ficedula flycatchers and their naturally occurring F₁ hybrids

Mugal, Carina; Wang, Mi; Backström, Niclas; Wheatcroft, David et al.

Part of Genome Research, p. 1727-1739, 2020

• DOI for Tissue-specific patterns of regulatory changes underlying gene expression differences among Ficedula flycatchers and their naturally occurring F₁ hybrids
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Footprints of adaptive evolution revealed by whole Z chromosomes haplotypes in flycatchers

Nadachowska-Brzyska, Krystyna; Burri, Reto; Ellegren, Hans

Part of Molecular Ecology, p. 2290-2304, 2019

• DOI for Footprints of adaptive evolution revealed by whole Z chromosomes haplotypes in flycatchers
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How Linked Selection Shapes the Diversity Landscape in Ficedula Flycatchers

Rettelbach, Agnes; Nater, Alexander; Ellegren, Hans

Part of Genetics, p. 277-285, 2019

• DOI for How Linked Selection Shapes the Diversity Landscape in Ficedula Flycatchers

The evolutionary history of grey wolf Y chromosomes

Smeds, Linnea; Kojola, Ilpo; Ellegren, Hans

Part of Molecular Ecology, p. 2173-2191, 2019

• DOI for The evolutionary history of grey wolf Y chromosomes
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Genotype-free estimation of allele frequencies reduces bias and improves demographic inference from RADSeq data

Warmuth, Vera; Ellegren, Hans

Part of Molecular Ecology Resources, p. 586-596, 2019

• DOI for Genotype-free estimation of allele frequencies reduces bias and improves demographic inference from RADSeq data

GC-biased gene conversion conceals the prediction of the nearly neutral theory in avian genomes

Bolivar, Paulina; Gueguen, Laurent; Duret, Laurent; Ellegren, Hans et al.

Part of Genome Biology, 2019

• DOI for GC-biased gene conversion conceals the prediction of the nearly neutral theory in avian genomes
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Genome sequencing and conservation genomics in the Scandinavian wolverine population

Ekblom, Robert; Brechlin, Birte; Persson, Jens; Smeds, Linnea et al.

Part of Conservation Biology, p. 1301-1312, 2018

• DOI for Genome sequencing and conservation genomics in the Scandinavian wolverine population
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A Genetic Map of Ostrich Z Chromosome and the Role of Inversions in Avian Sex Chromosome Evolution

Yazdi, Homa Papoli; Ellegren, Hans

Part of Genome Biology and Evolution, p. 2049-2060, 2018

• DOI for A Genetic Map of Ostrich Z Chromosome and the Role of Inversions in Avian Sex Chromosome Evolution
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Biased Inference of Selection Due to GC-Biased Gene Conversion and the Rate of Protein Evolution in Flycatchers When Accounting for It

Bolivar, Paulina; Mugal, Carina; Sebastiano, Matteo Rossi; Nater, Alexander et al.

Part of Molecular biology and evolution, p. 2475-2486, 2018

• DOI for Biased Inference of Selection Due to GC-Biased Gene Conversion and the Rate of Protein Evolution in Flycatchers When Accounting for It
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Abundant recent activity of retrovirus-like retrotransposons within and among flycatcher species implies a rich source of structural variation in songbird genomes

Suh, Alexander; Smeds, Linnea; Ellegren, Hans

Part of Molecular Ecology, p. 99-111, 2018

• DOI for Abundant recent activity of retrovirus-like retrotransposons within and among flycatcher species implies a rich source of structural variation in songbird genomes
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Genomic consequences of intensive inbreeding in an isolated wolf population

Kardos, Marty; Åkesson, Mikael; Fountain, Toby; Flagstad, Oystein et al.

Part of Nature Ecology & Evolution, p. 124-131, 2018

• DOI for Genomic consequences of intensive inbreeding in an isolated wolf population

Sex-biased gene expression, sexual antagonism and levels of genetic diversity in the collared flycatcher (Ficedula albicollis) genome

Dutoit, Ludovic; Mugal, Carina; Bolivar, Paulina; Wang, Mi et al.

Part of Molecular Ecology, p. 3572-3581, 2018

• DOI for Sex-biased gene expression, sexual antagonism and levels of genetic diversity in the collared flycatcher (Ficedula albicollis) genome
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Natural selection beyond genes: Identification and analyses of evolutionarily conserved elements in the genome of the collared flycatcher (Ficedula albicollis)

Craig, Rory J.; Suh, Alexander; Wang, Mi; Ellegren, Hans

Part of Molecular Ecology, p. 476-492, 2018

• DOI for Natural selection beyond genes: Identification and analyses of evolutionarily conserved elements in the genome of the collared flycatcher (Ficedula albicollis)
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Inferring Individual Inbreeding and Demographic History from Segments of Identity by Descent in Ficedula Flycatcher Genome Sequences

Kardos, Marty; Qvarnström, Anna; Ellegren, Hans

Part of Genetics, p. 1319-1334, 2017

• DOI for Inferring Individual Inbreeding and Demographic History from Segments of Identity by Descent in Ficedula Flycatcher Genome Sequences

Bayesian Inference of Allele-Specific Gene Expression Indicates Abundant Cis-Regulatory Variation in Natural Flycatcher Populations

Wang, Mi; Uebbing, Severin; Ellegren, Hans

Part of Genome Biology and Evolution, p. 1266-1279, 2017

• DOI for Bayesian Inference of Allele-Specific Gene Expression Indicates Abundant Cis-Regulatory Variation in Natural Flycatcher Populations
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Genomewide patterns of variation in genetic diversity are shared among populations, species and higher-order taxa

Vijay, Nagarjun; Weissensteiner, Matthias; Burri, Reto; Kawakami, Takeshi et al.

Part of Molecular Ecology, p. 4284-4295, 2017

• DOI for Genomewide patterns of variation in genetic diversity are shared among populations, species and higher-order taxa

Whole-genome patterns of linkage disequilibrium across flycatcher populations clarify the causes and consequences of fine-scale recombination rate variation in birds

Kawakami, Takeshi; Mugal, Carina; Suh, Alexander; Nater, Alexander et al.

Part of Molecular Ecology, p. 4158-4172, 2017

• DOI for Whole-genome patterns of linkage disequilibrium across flycatcher populations clarify the causes and consequences of fine-scale recombination rate variation in birds
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Insights into the genetic architecture of morphological traits in two passerine bird species

Silva, C. N. S.; McFarlane, S. Eryn; Hagen, I. J.; Ronnegard, L. et al.

Part of Heredity, p. 197-205, 2017

• DOI for Insights into the genetic architecture of morphological traits in two passerine bird species

Covariation in levels of nucleotide diversity in homologous regions of the avian genome long after completion of lineage sorting

Dutoit, Ludovic; Vijay, Nagarjun; Mugal, Carina F.; Bossu, Christen M. et al.

Part of Proceedings of the Royal Society of London. Biological Sciences, 2017

• DOI for Covariation in levels of nucleotide diversity in homologous regions of the avian genome long after completion of lineage sorting

Parallelism in genomic landscapes of differentiation, conserved genomic features and the role of linked selection

Ellegren, Hans; Wolf, Jochen B. W.

Part of Journal of Evolutionary Biology, p. 1516-1518, 2017

• DOI for Parallelism in genomic landscapes of differentiation, conserved genomic features and the role of linked selection

Association mapping of morphological traits in wild and captive zebra finches: reliable within, but not between populations

Knief, Ulrich; Schielzeth, Holger; Backström, Niclas; Hemmrich-Stanisak, Georg et al.

Part of Molecular Ecology, p. 1285-1305, 2017

• DOI for Association mapping of morphological traits in wild and captive zebra finches: reliable within, but not between populations

Genomic distribution and estimation of nucleotide diversity in natural populations: perspectives from the collared flycatcher (Ficedula albicollis) genome

Dutoit, Ludovic; Burri, Reto; Nater, Alexander; Mugal, Carina F. et al.

Part of Molecular Ecology Resources, p. 586-597, 2017

• DOI for Genomic distribution and estimation of nucleotide diversity in natural populations: perspectives from the collared flycatcher (Ficedula albicollis) genome
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Whole-genome resequencing of extreme phenotypes in collared flycatchers highlights the difficulty of detecting quantitative trait loci in natural populations

Kardos, Marty; Husby, Arild; McFarlane, S. Eryn; Qvarnström, Anna et al.

Part of Molecular Ecology Resources, p. 727-741, 2016

• DOI for Whole-genome resequencing of extreme phenotypes in collared flycatchers highlights the difficulty of detecting quantitative trait loci in natural populations

Recombination Rate Variation Modulates Gene Sequence Evolution Mainly via GC-Biased Gene Conversion, Not Hill-Robertson Interference, in an Avian System

Bolívar, Paulina; Mugal, Carina F; Nater, Alexander; Ellegren, Hans

Part of Molecular biology and evolution, p. 216-227, 2016

• DOI for Recombination Rate Variation Modulates Gene Sequence Evolution Mainly via GC-Biased Gene Conversion, Not Hill-Robertson Interference, in an Avian System
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High-Resolution Mapping of Crossover and Non-crossover Recombination Events by Whole-Genome Re-sequencing of an Avian Pedigree

Smeds, Linnéa; Mugal, Carina F; Qvarnström, Anna; Ellegren, Hans

Part of PLOS Genetics, 2016

• DOI for High-Resolution Mapping of Crossover and Non-crossover Recombination Events by Whole-Genome Re-sequencing of an Avian Pedigree
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Direct estimate of the rate of germline mutation in a bird

Smeds, Linnea; Qvarnström, Anna; Ellegren, Hans

Part of Genome Research, p. 1211-1218, 2016

• DOI for Direct estimate of the rate of germline mutation in a bird
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Noninvasive genetic sampling reveals intrasex territoriality in wolverines

Bischof, Richard; Gregersen, Espen R.; Broseth, Henrik; Ellegren, Hans et al.

Part of Ecology and Evolution, p. 1527-1536, 2016

• DOI for Noninvasive genetic sampling reveals intrasex territoriality in wolverines
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Increasing the power of genome wide association studies in natural populations using repeated measures - evaluation and implementation

Rönnegård, Lars; McFarlane, S. Eryn; Husby, Arild; Kawakami, Takeshi et al.

Part of Methods in Ecology and Evolution, p. 792-799, 2016

• DOI for Increasing the power of genome wide association studies in natural populations using repeated measures - evaluation and implementation
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Divergence in gene expression within and between two closely related flycatcher species

Uebbing, Severin; Künstner, Axel; Mäkinen, Hannu; Backström, Niclas et al.

Part of Molecular Ecology, p. 2015-2028, 2016

• DOI for Divergence in gene expression within and between two closely related flycatcher species
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Life History Traits, Protein Evolution, and the Nearly Neutral Theory in Amniotes

Figuet, Emeric; Nabholz, Benoit; Bonneau, Manon; Carrio, Eduard Mas et al.

Part of Molecular biology and evolution, p. 1517-1527, 2016

• DOI for Life History Traits, Protein Evolution, and the Nearly Neutral Theory in Amniotes

GC-biased gene conversion links the recombination landscape and demography to genomic base composition: GC-biased gene conversion drives genomic base composition across a wide range of species

Mugal, Carina F; Weber, Claudia C; Ellegren, Hans

Part of Bioessays, p. 1317-1326, 2015

• DOI for GC-biased gene conversion links the recombination landscape and demography to genomic base composition: GC-biased gene conversion drives genomic base composition across a wide range of species

A prezygotic transmission distorter acting equally in female and male zebra finches Taeniopygia guttata

Knief, Ulrich; Schielzeth, Holger; Ellegren, Hans; Kempenaers, Bart et al.

Part of Molecular Ecology, p. 3846-3859, 2015

• DOI for A prezygotic transmission distorter acting equally in female and male zebra finches Taeniopygia guttata

Third Report on Chicken Genes and Chromosomes 2015

Schmid, Michael; Smith, Jacqueline; Burt, David W.; Aken, Bronwen L. et al.

Part of Cytogenetic and Genome Research, p. 78-179, 2015

• DOI for Third Report on Chicken Genes and Chromosomes 2015

Quantitative Mass Spectrometry Reveals Partial Translational Regulation for Dosage Compensation in Chicken

Uebbing, Severin; Konzer, Anne; Xu, Luohao; Backström, Niclas et al.

Part of Molecular biology and evolution, p. 2716-2725, 2015

• DOI for Quantitative Mass Spectrometry Reveals Partial Translational Regulation for Dosage Compensation in Chicken
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Evolutionary Consequences of DNA Methylation on the GC Content in Vertebrate Genomes

Mugal, Carina F.; Arndt, Peter F.; Holm, Lena; Ellegren, Hans

Part of G3, p. 441-447, 2015

• DOI for Evolutionary Consequences of DNA Methylation on the GC Content in Vertebrate Genomes
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Evolutionary analysis of the female-specific avian W chromosome

Smeds, Linnea; Warmuth, Vera; Bolivar, Paulina; Uebbing, Severin et al.

Part of Nature Communications, 2015

• DOI for Evolutionary analysis of the female-specific avian W chromosome
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Phylogenomic analyses data of the avian phylogenomics project

Jarvis, Erich D.; Mirarab, Siavash; Aberer, Andre J.; Li, Bo et al.

Part of GigaScience, 2015

• DOI for Phylogenomic analyses data of the avian phylogenomics project
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Genome-wide association mapping in a wild avian population identifies a link between genetic and phenotypic variation in a life-history trait

Husby, Arild; Kawakami, Takeshi; Ronnegard, Lars; Smeds, Linnea et al.

Part of Proceedings of the Royal Society of London. Biological Sciences, 2015

• DOI for Genome-wide association mapping in a wild avian population identifies a link between genetic and phenotypic variation in a life-history trait
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Temporal Dynamics of Avian Populations during Pleistocene Revealed by Whole-Genome Sequences

Nadachowska-Brzyska, Krystyna; Li, Cai; Smeds, Linnea; Zhang, Guojie et al.

Part of Current Biology, p. 1375-1380, 2015

• DOI for Temporal Dynamics of Avian Populations during Pleistocene Revealed by Whole-Genome Sequences
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Resolving Evolutionary Relationships in Closely Related Species with Whole-Genome Sequencing Data

Nater, Alexander; Burri, Reto; Kawakami, Takeshi; Smeds, Linnea et al.

Part of Systematic Biology, p. 1000-1017, 2015

• DOI for Resolving Evolutionary Relationships in Closely Related Species with Whole-Genome Sequencing Data

Compensatory immigration counteracts contrasting conservation strategies of wolverines (Gulo gulo) within Scandinavia

Gervasi, Vincenzo; Broseth, Henrik; Nilsen, Erlend B.; Ellegren, Hans et al.

Part of Biological Conservation, p. 632-639, 2015

• DOI for Compensatory immigration counteracts contrasting conservation strategies of wolverines (Gulo gulo) within Scandinavia

The Dynamics of Incomplete Lineage Sorting across the Ancient Adaptive Radiation of Neoavian Birds

Suh, Alexander; Smeds, Linnea; Ellegren, Hans

Part of PLoS biology, 2015

• DOI for The Dynamics of Incomplete Lineage Sorting across the Ancient Adaptive Radiation of Neoavian Birds
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Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers

Burri, Reto; Nater, Alexander; Kawakami, Takeshi; Mugal, Carina F. et al.

Part of Genome Research, p. 1656-1665, 2015

• DOI for Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers
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Estimation of linkage disequilibrium and interspecific gene flow in Ficedula flycatchers by a newly developed 50k single-nucleotide polymorphism array

Kawakami, Takeshi; Backström, Niclas; Burri, Reto; Husby, Arild et al.

Part of Molecular Ecology Resources, p. 1248-1260, 2014

• DOI for Estimation of linkage disequilibrium and interspecific gene flow in Ficedula flycatchers by a newly developed 50k single-nucleotide polymorphism array
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Old but Not (So) Degenerated-Slow Evolution of Largely Homomorphic Sex Chromosomes in Ratites

Yazdi, Homa Papoli; Ellegren, Hans

Part of Molecular biology and evolution, p. 1444-1453, 2014

• DOI for Old but Not (So) Degenerated-Slow Evolution of Largely Homomorphic Sex Chromosomes in Ratites

Reconstruction of gross avian genome structure, organization and evolution suggests that the chicken lineage most closely resembles the dinosaur avian ancestor

Romanov, Michael N.; Farre, Marta; Lithgow, Pamela E.; Fowler, Katie E. et al.

Part of BMC Genomics, p. 1060, 2014

• DOI for Reconstruction of gross avian genome structure, organization and evolution suggests that the chicken lineage most closely resembles the dinosaur avian ancestor
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Early Mesozoic Coexistence of Amniotes and Hepadnaviridae

Suh, Alexander Sang-Jae; Weber, Claudia C.; Kehlmaier, Christian; Braun, Edward L. et al.

Part of PLOS Genetics, 2014

• DOI for Early Mesozoic Coexistence of Amniotes and Hepadnaviridae
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K-r/K-c but not d(N)/d(S) correlates positively with body mass in birds, raising implications for inferring lineage-specific selection

Weber, Claudia C.; Nabholz, Benoit; Romiguier, Jonathan; Ellegren, Hans

Part of Genome Biology, p. 542, 2014

• DOI for K-r/K-c but not d(N)/d(S) correlates positively with body mass in birds, raising implications for inferring lineage-specific selection
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Evidence for GC-biased gene conversion as a driver of between-lineage differences in avian base composition

Weber, Claudia C.; Boussau, Bastien; Romiguier, Jonathan; Jarvis, Erich D. et al.

Part of Genome Biology, p. 549, 2014

• DOI for Evidence for GC-biased gene conversion as a driver of between-lineage differences in avian base composition
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Patterns of sequencing coverage bias revealed by ultra-deep sequencing of vertebrate mitochondria

Ekblom, Robert; Smeds, Linnea; Ellegren, Hans

Part of BMC Genomics, p. 467, 2014

• DOI for Patterns of sequencing coverage bias revealed by ultra-deep sequencing of vertebrate mitochondria
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Genomic identification and characterization of the pseudoautosomal region in highly differentiated avian sex chromosomes

Smeds, Linnea; Kawakami, Takeshi; Burri, Reto; Bolivar, Paulina et al.

Part of Nature Communications, p. 5448, 2014

• DOI for Genomic identification and characterization of the pseudoautosomal region in highly differentiated avian sex chromosomes

Two Antarctic penguin genomes reveal insights into their evolutionary history and molecular changes related to the Antarctic environment

Li, Cai; Zhang, Yong; Li, Jianwen; Kong, Lesheng et al.

Part of GigaScience, 2014

• DOI for Two Antarctic penguin genomes reveal insights into their evolutionary history and molecular changes related to the Antarctic environment
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Whole-genome analyses resolve early branches in the tree of life of modern birds

Jarvis, Erich D.; Mirarab, Siavash; Aberer, Andre J.; Li, Bo et al.

Part of Science, p. 1320-1331, 2014

• DOI for Whole-genome analyses resolve early branches in the tree of life of modern birds

Twisted Signatures of GC-Biased Gene Conversion Embedded in an Evolutionary Stable Karyotype

Mugal, Carina F.; Arndt, Peter F.; Ellegren, Hans

Part of Molecular biology and evolution, p. 1700-1712, 2013

• DOI for Twisted Signatures of GC-Biased Gene Conversion Embedded in an Evolutionary Stable Karyotype

Transcriptome Sequencing Reveals the Character of Incomplete Dosage Compensation across Multiple Tissues in Flycatchers

Uebbing, Severin; Kunstner, Axel; Makinen, Hannu; Ellegren, Hans

Part of Genome Biology and Evolution, p. 1555-1566, 2013

• DOI for Transcriptome Sequencing Reveals the Character of Incomplete Dosage Compensation across Multiple Tissues in Flycatchers
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Inferring the demographic history of European Ficedula flycatcher populations

Backström, Niclas; Saetre, Glenn-Peter; Ellegren, Hans

Part of BMC Evolutionary Biology, p. 2, 2013

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Genome-wide analysis in chicken reveals that local levels of genetic diversity are mainly governed by the rate of recombination

Mugal, Carina F.; Nabholz, Benoit; Ellegren, Hans

Part of BMC Genomics, p. 86, 2013

• DOI for Genome-wide analysis in chicken reveals that local levels of genetic diversity are mainly governed by the rate of recombination
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Demographic Divergence History of Pied Flycatcher and Collared Flycatcher Inferred from Whole-Genome Re-sequencing Data

Nadachowska-Brzyska, Krystyna; Burri, Reto; Olason, Pall; Kawakami, Takeshi et al.

Part of PLOS Genetics, 2013

• DOI for Demographic Divergence History of Pied Flycatcher and Collared Flycatcher Inferred from Whole-Genome Re-sequencing Data
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An extensive candidate gene approach to speciation: diversity, divergence and linkage disequilibrium in candidate pigmentation genes across the European crow hybrid zone

Poelstra, Jelmer W.; Ellegren, Hans; Wolf, Jochen

Part of Heredity, p. 467-473, 2013

• DOI for An extensive candidate gene approach to speciation: diversity, divergence and linkage disequilibrium in candidate pigmentation genes across the European crow hybrid zone

Sampling strategies for species trees: The effects on phylogenetic inference of the number of genes, number of individuals, and whether loci are mitochondrial, sex-linked, or autosomal

Corl, Ammon; Ellegren, Hans

Part of Molecular Phylogenetics and Evolution, p. 358-366, 2013

• DOI for Sampling strategies for species trees: The effects on phylogenetic inference of the number of genes, number of individuals, and whether loci are mitochondrial, sex-linked, or autosomal

High Levels of Gene Expression Explain the Strong Evolutionary Constraint of Mitochondrial Protein-Coding Genes

Nabholz, Benoit; Ellegren, Hans; Wolf, Jochen B. W.

Part of Molecular biology and evolution, p. 272-284, 2013

• DOI for High Levels of Gene Expression Explain the Strong Evolutionary Constraint of Mitochondrial Protein-Coding Genes

Lack of Dosage Compensation Accompanies the Arrested Stage of Sex Chromosome Evolution in Ostriches

Adolfsson, Sofia; Ellegren, Hans

Part of Molecular biology and evolution, p. 806-810, 2013

• DOI for Lack of Dosage Compensation Accompanies the Arrested Stage of Sex Chromosome Evolution in Ostriches

Recombination drives vertebrate genome contraction

Nam, Kiwoong; Ellegren, Hans

Part of PLOS Genetics, 2012

• DOI for Recombination drives vertebrate genome contraction
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The genomic landscape of species divergence in Ficedula flycatchers

Ellegren, Hans; Smeds, Linnea; Burri, Reto; Ólason, Páll I. et al.

Part of Nature, p. 756-760, 2012

• DOI for The genomic landscape of species divergence in Ficedula flycatchers

QTL and quantitative genetic analysis of beak morphology reveals patterns of standing genetic variation in an Estrildid finch

Knief, Ulrich; Schielzeth, Holger; Kempenaers, Bart; Ellegren, Hans et al.

Part of Molecular Ecology, p. 3704-3717, 2012

• DOI for QTL and quantitative genetic analysis of beak morphology reveals patterns of standing genetic variation in an Estrildid finch

Heterozygosity-fitness correlations in zebra finches: microsatellite markers can be better than their reputation

Forstmeier, Wolfgang; Schielzeth, Holger; Mueller, Jakob C.; Ellegren, Hans et al.

Part of Molecular Ecology, p. 3237-3249, 2012

• DOI for Heterozygosity-fitness correlations in zebra finches: microsatellite markers can be better than their reputation

QTL linkage mapping of wing length in zebra finch using genome-wide single nucleotide polymorphisms markers

Schielzeth, Holger; Forstmeier, Wolfgang; Kempenaers, Bart; Ellegren, Hans

Part of Molecular Ecology, p. 329-339, 2012

• DOI for QTL linkage mapping of wing length in zebra finch using genome-wide single nucleotide polymorphisms markers

The genomic signature of sexual selection in the genetic diversity of the sex chromosomes and autosomes

Corl, Ammon; Ellegren, Hans

Part of Evolution, p. 2138-2149, 2012

• DOI for The genomic signature of sexual selection in the genetic diversity of the sex chromosomes and autosomes

QTL linkage mapping of Zebra finch beak color shows an oligogenic control of a sexually selected trait

Schielzeth, Holger; Kempenaers, Bart; Ellegren, Hans; Forstmeier, Wolfgang

Part of Evolution, p. 18-30, 2012

• DOI for QTL linkage mapping of Zebra finch beak color shows an oligogenic control of a sexually selected trait

Significant Selective Constraint at 4-Fold Degenerate Sites in the Avian Genome and Its Consequence for Detection of Positive Selection

Künstner, Axel; Nabholz, Benoit; Ellegren, Hans

Part of Genome Biology and Evolution, p. 1381-1389, 2011

• DOI for Significant Selective Constraint at 4-Fold Degenerate Sites in the Avian Genome and Its Consequence for Detection of Positive Selection

Evolutionary Constraint in Flanking Regions of Avian Genes

Künstner, Axel; Nabholz, Benoit; Ellegren, Hans

Part of Molecular biology and evolution, p. 2481-2489, 2011

• DOI for Evolutionary Constraint in Flanking Regions of Avian Genes

Dynamic Evolution of Base Composition: Causes and Consequences in Avian Phylogenomics

Nabholz, Benoit; Künstner, Axel; Wang, Rui; Jarvis, Erich D. et al.

Part of Molecular biology and evolution, p. 2197-2210, 2011

• DOI for Dynamic Evolution of Base Composition: Causes and Consequences in Avian Phylogenomics

Emergence of male-biased genes on the chicken Z-chromosome: Sex-chromosome contrasts between male and female heterogametic systems

Ellegren, Hans

Part of Genome Research, p. 2082-2086, 2011

• DOI for Emergence of male-biased genes on the chicken Z-chromosome: Sex-chromosome contrasts between male and female heterogametic systems

The singing genome

Ellegren, Hans

Part of Heredity, p. 533-534, 2011

• DOI for The singing genome

Substitution rate variation at human CpG sites correlates with non-CpG divergence, methylation level and GC content

Mugal, Carina F.; Ellegren, Hans

Part of Genome Biology, 2011

• DOI for Substitution rate variation at human CpG sites correlates with non-CpG divergence, methylation level and GC content

A guide to the genomics of ecological speciation in natural animal populations

Rice, Amber M.; Rudh, Andreas; Ellegren, Hans; Qvarnström, Anna

Part of Ecology Letters, p. 9-18, 2011

• DOI for A guide to the genomics of ecological speciation in natural animal populations

Faster-Z evolution is predominantly due to genetic drift

Mank, Judith E.; Nam, Kiwoong; Ellegren, Hans

Part of Molecular biology and evolution, p. 661-670, 2010

• DOI for Faster-Z evolution is predominantly due to genetic drift

The recombination landscape of the zebra finch Taeniopygia guttata genome

Backström, Niclas; Forstmeier, Wolfgang; Schielzeth, Holger; Mellenius, Harriet et al.

Part of Genome Research, p. 485-495, 2010

• DOI for The recombination landscape of the zebra finch Taeniopygia guttata genome

Conservation of Neutral Substitution Rate and Substitutional Asymmetries in Mammalian Genes

Mugal, Carina F.; Wolf, Jochen; von Gruenberg, H. H.; Ellegren, Hans

Part of Genome Biology and Evolution, p. 19-28, 2010

• DOI for Conservation of Neutral Substitution Rate and Substitutional Asymmetries in Mammalian Genes

Ontogenetic Complexity of Sexual Dimorphism and Sex-Specific Selection

Mank, Judith E.; Nam, Kiwoong; Brunström, Björn; Ellegren, Hans

Part of Molecular biology and evolution, p. 1570-1578, 2010

• DOI for Ontogenetic Complexity of Sexual Dimorphism and Sex-Specific Selection

Comparative genomics based on massive parallel transcriptome sequencing reveals patterns of substitution and selection across 10 bird species

Künstner, Axel; Wolf, Jochen B. W.; Backström, Niclas; Whitney, Osceola et al.

Part of Molecular Ecology, p. 266-276, 2010

• DOI for Comparative genomics based on massive parallel transcriptome sequencing reveals patterns of substitution and selection across 10 bird species

Ancient DNA reveals traces of Iberian Neolithic and Bronze Age lineages in modern Iberian horses

Lira, Jaime; Linderholm, Anna; Olaria, Carmen; Brandström Durling, Mikael et al.

Part of Molecular Ecology, p. 64-78, 2010

• DOI for Ancient DNA reveals traces of Iberian Neolithic and Bronze Age lineages in modern Iberian horses

Obtaining mtDNA genomes from next-generation transcriptome sequencing: A case study on the basal Passerida (Aves: Passeriformes) phylogeny

Nabholz, Benoit; Jarvis, Erich D.; Ellegren, Hans

Part of Molecular Phylogenetics and Evolution, p. 466-470, 2010

• DOI for Obtaining mtDNA genomes from next-generation transcriptome sequencing: A case study on the basal Passerida (Aves: Passeriformes) phylogeny

Molecular evolution of genes in avian genomes

Nam, Kiwoong; Mugal, Carina; Nabholz, Benoit; Schielzeth, Holger et al.

Part of Genome Biology, 2010

• DOI for Molecular evolution of genes in avian genomes

The genome of a songbird

Warren, Wesley C; Clayton, David F; Ellegren, Hans; Arnold, Arthur P et al.

Part of Nature, p. 757-762, 2010

• DOI for The genome of a songbird

Large-scale noninvasive genetic monitoring of wolverines using scats reveals density dependent adult survival

Broseth, Henrik; Flagstad, Oystein; Wärdig, Cecilia; Johansson, Malin et al.

Part of Biological Conservation, p. 113-120, 2010

• DOI for Large-scale noninvasive genetic monitoring of wolverines using scats reveals density dependent adult survival

A high-density scan of the Z chromosome in ficedula flycatchers reveals candidate loci for diversifying selection

Backström, Niclas; Lindell, Johan; Zhang, Yu; Palkopoulou, Eleftheria et al.

Part of Evolution, p. 3461-3475, 2010

• DOI for A high-density scan of the Z chromosome in ficedula flycatchers reveals candidate loci for diversifying selection

Next generation molecular ecology.

Tautz, Diethard; Ellegren, Hans; Weigel, Detlef

Part of Molecular Ecology, p. 1-3, 2010

• DOI for Next generation molecular ecology.

Trisomy and triploidy are sources of embryo mortality in the zebra finch

Forstmeier, Wolfgang; Ellegren, Hans

Part of Proceedings of the Royal Society of London. Biological Sciences, p. 2655-2660, 2010

• DOI for Trisomy and triploidy are sources of embryo mortality in the zebra finch

Widespread hybridization between the Greater Spotted Eagle Aquila clanga and the Lesser Spotted Eagle Aquila pomarina (Aves: Accipitriformes) in Europe

Väli, Ülo; Dombrovski, Valery; Treinys, Rimgaudas; Bergmanis, Ugis et al.

Part of Biological Journal of the Linnean Society, p. 725-736, 2010

• DOI for Widespread hybridization between the Greater Spotted Eagle Aquila clanga and the Lesser Spotted Eagle Aquila pomarina (Aves: Accipitriformes) in Europe

Avian genome evolution: insights from a linkage map of the blue tit (Cyanistes caeruleus)

Hansson, B; Ljungqvist, M; Dawson, A; Mueller, C et al.

Part of Heredity, p. 67-78, 2010

• DOI for Avian genome evolution: insights from a linkage map of the blue tit (Cyanistes caeruleus)

Evolutionary stasis: the stable chromosomes of birds

Ellegren, Hans

Part of Trends in Ecology & Evolution, p. 283-291, 2010

• DOI for Evolutionary stasis: the stable chromosomes of birds

Copy number variation, chromosome rearrangement, and their association with recombination during avian evolution

Völker, Martin; Backström, Niclas; Skinner, Benjamin M; Langley, Elizabeth J et al.

Part of Genome Research, p. 503-511, 2010

• DOI for Copy number variation, chromosome rearrangement, and their association with recombination during avian evolution

No evidence for Z-chromosome rearrangements between the pied flycatcher and the collared flycatcher as judged by gene-based comparative genetic maps

Backström, Niclas; Palkopoulou, Eleftheria; Qvarnström, Anna; Ellegren, Hans

Part of Molecular Ecology, p. 3394-3405, 2010

• DOI for No evidence for Z-chromosome rearrangements between the pied flycatcher and the collared flycatcher as judged by gene-based comparative genetic maps

Nonlinear Dynamics of Nonsynonymous (d(N)) and Synonymous (d(S)) Substitution Rates Affects Inference of Selection

Wolf, Jochen B. W.; Kuenstner, Axel; Nam, Kiwoong; Jakobsson, Mattias et al.

Part of Genome Biology and Evolution, p. 308-319, 2009

• DOI for Nonlinear Dynamics of Nonsynonymous (d(N)) and Synonymous (d(S)) Substitution Rates Affects Inference of Selection

Identification of conservation units in the European Mergus merganser based on nuclear and mitochondrial DNA markers

Hefti-Gautschi, Barbara; Pfunder, Monika; Jenni, Lukas; Keller, Verena et al.

Part of Conservation Genetics, p. 87-99, 2009

• DOI for Identification of conservation units in the European Mergus merganser based on nuclear and mitochondrial DNA markers

Sex determination: two copies for one cock.

Ellegren, Hans

Part of Current Biology, 2009

• DOI for Sex determination: two copies for one cock.

Population genomics of the inbred Scandinavian wolf

Hagenblad, Jenny; Olsson, Maria; Parker, Heidi G.; Ostrander, Elaine A. et al.

Part of Molecular Ecology, p. 1341-1351, 2009

• DOI for Population genomics of the inbred Scandinavian wolf

SEX-LINKAGE OF SEXUALLY ANTAGONISTIC GENES IS PREDICTED BY FEMALE, BUT NOT MALE, EFFECTS IN BIRDS

Mank, Judith E.; Ellegren, Hans

Part of Evolution, p. 1464-1472, 2009

• DOI for SEX-LINKAGE OF SEXUALLY ANTAGONISTIC GENES IS PREDICTED BY FEMALE, BUT NOT MALE, EFFECTS IN BIRDS

A selection model of molecular evolution incorporating the effective population size.

Ellegren, Hans

Part of Evolution, p. 301-305, 2009

• DOI for A selection model of molecular evolution incorporating the effective population size.

All dosage compensation is local: Gene-by-gene regulation of sex-biased expression on the chicken Z chromosome

Mank, J. E.; Ellegren, Hans

Part of Heredity, p. 312-320, 2009

• DOI for All dosage compensation is local: Gene-by-gene regulation of sex-biased expression on the chicken Z chromosome

Quantification of Adaptive Evolution of Genes Expressed in Avian Brain and the Population Size Effect on the Efficacy of Selection

Axelsson, Erik; Ellegren, Hans

Part of Molecular biology and evolution, p. 1073-1079, 2009

• DOI for Quantification of Adaptive Evolution of Genes Expressed in Avian Brain and the Population Size Effect on the Efficacy of Selection

Genomic evidence for a large-Z effect

Ellegren, Hans

Part of Proceedings of the Royal Society of London. Biological Sciences, p. 361-366, 2009

• DOI for Genomic evidence for a large-Z effect

Is genetic diversity really higher in large populations?

Ellegren, Hans

Part of Journal of Biology, p. 41, 2009

• DOI for Is genetic diversity really higher in large populations?

Sex bias in gene expression is not the same as dosage compensation

Mank, Judith E.; Ellegren, Hans

Part of Heredity, p. 434-434, 2009

• DOI for Sex bias in gene expression is not the same as dosage compensation

Are sex-biased genes more dispensable?

Mank, Judith E; Ellegren, Hans

Part of Biology Letters, p. 409-412, 2009

• DOI for Are sex-biased genes more dispensable?

The unique genomic properties of sex-biased genes: insights from avian microarray data

Mank, Judith E.; Hultin-Rosenberg, Lina; Webster, Matthew T.; Ellegren, Hans

Part of BMC Genomics, p. 148, 2008

• DOI for The unique genomic properties of sex-biased genes: insights from avian microarray data

Insertion-deletion polymorphisms (indels) as genetic markers in natural populations

Väli, Ulo; Brandström, Mikael; Johansson, Malin; Ellegren, Hans

Part of BMC Genetics, p. 8, 2008

• DOI for Insertion-deletion polymorphisms (indels) as genetic markers in natural populations

Adaptive Evolution of Gamete-Recognition Proteins in Birds

Berlin, Sofia; Qu, Lujiang; Ellegren, Hans

Part of Journal of Molecular Evolution, p. 488-496, 2008

• DOI for Adaptive Evolution of Gamete-Recognition Proteins in Birds

The Chicken (Gallus gallus) Z Chromosome Contains at Least Three Nonlinear Evolutionary Strata

Nam, Kiwoong; Ellegren, Hans

Part of Genetics, p. 1131-1136, 2008

• DOI for The Chicken (Gallus gallus) Z Chromosome Contains at Least Three Nonlinear Evolutionary Strata

Positive diversifying selection in avian Mx genes

Berlin, Sofia; Qu, Lujiang; Li, Xianyao; Yang, Ning et al.

Part of Immunogenetics, p. 689-697, 2008

• DOI for Positive diversifying selection in avian Mx genes

Wolf or dog? Genetic identification of predator from saliva collected around bite wounds on prey

Sundqvist, Anna-Karin; Ellegren, Hans; Vilà, Carles

Part of Conservation Genetics, p. 1275-1279, 2008

• DOI for Wolf or dog? Genetic identification of predator from saliva collected around bite wounds on prey

The relationship between microsatellite polymorphism and recombination hot spots in the human genome

Brandström, Mikael; Bagshaw, Andrew T.; Gemmell, Neil J.; Ellegren, Hans

Part of Molecular biology and evolution, p. 2579-2587, 2008

• DOI for The relationship between microsatellite polymorphism and recombination hot spots in the human genome

Genomics of natural bird populations: a gene-based set of reference markers evenly spread across the avian genome

Backström, Niclas; Fagerberg, Sofie; Ellegren, Hans

Part of Molecular Ecology, p. 964-980, 2008

• DOI for Genomics of natural bird populations: a gene-based set of reference markers evenly spread across the avian genome

Pleiotropic constraint hampers the resolution of sexual antagonism in vertebrate gene expression

Mank, Judith E; Hultin-Rosenberg, Lina; Zwahlen, Martin; Ellegren, Hans

Part of American Naturalist, p. 35-43, 2008

• DOI for Pleiotropic constraint hampers the resolution of sexual antagonism in vertebrate gene expression

A Gene-Based Genetic Linkage Map of the Collared Flycatcher (Ficedula albicollis) Reveals Extensive Synteny and Gene-Order Conservation During 100 Million Years of Avian Evolution

Backström, Niclas; Karaiskou, Nikoletta; Leder, Erica H.; Gustafsson, Lars et al.

Part of Genetics, p. 1479-1495, 2008

• DOI for A Gene-Based Genetic Linkage Map of the Collared Flycatcher (Ficedula albicollis) Reveals Extensive Synteny and Gene-Order Conservation During 100 Million Years of Avian Evolution

To what extent do microsatellite markers reflect genome-wide genetic diversity in natural populations?

Väli, Ülo; Einarsson, Annika; Waits, L.; Ellegren, Hans

Part of Molecular Ecology, p. 3808-3817, 2008

• DOI for To what extent do microsatellite markers reflect genome-wide genetic diversity in natural populations?

Natural selection in protein-coding genes expressed in avian brain

Axelsson, Erik; Hultin-Rosenberg, Lina; Brandström, Mikael; Zwalen, Martin et al.

Part of Molecular Ecology, p. 3008-3017, 2008

• DOI for Natural selection in protein-coding genes expressed in avian brain

Genome-wide analysis of microsatellite polymorphism in chicken circumventing the ascertainment bias

Brandström, Miakel; Ellegren, Hans

Part of Genome Research, p. 881-887, 2008

• DOI for Genome-wide analysis of microsatellite polymorphism in chicken circumventing the ascertainment bias

Sequencing goes 454 and takes large-scale genomics into the wild

Ellegren, Hans

Part of Molecular Ecology, p. 1629-1631, 2008

• DOI for Sequencing goes 454 and takes large-scale genomics into the wild

Platypus genome suggests a recent origin for the human X.

Ellegren, Hans

Part of Current Biology, 2008

• DOI for Platypus genome suggests a recent origin for the human X.

Faced with inequality: chicken do not have a general dosage compensation of sex-linked genes

Ellegren, Hans; Hultin-Rosenberg, Lina; Brunström, Björn; Dencker, Lennart et al.

Part of BMC Biology, p. 40, 2007

• DOI for Faced with inequality: chicken do not have a general dosage compensation of sex-linked genes

DNA-based monitoring of two newly founded Scandinavian wolverine populations

Hedmark, Eva; Ellegren, Hans

Part of Conservation Genetics, p. 843-852, 2007

• DOI for DNA-based monitoring of two newly founded Scandinavian wolverine populations

Molecular evolutionary genomics of birds

Ellegren, Hans

Part of Cytogenetics and Cell Genetics, p. 120-130, 2007

• DOI for Molecular evolutionary genomics of birds

Evolutionary Genomics: A Dinosaur's View of Genome-Size Evolution

Ellegren, Hans

Part of Current Biology, 2007

• DOI for Evolutionary Genomics: A Dinosaur's View of Genome-Size Evolution

Parallel divergence and degradation of the avian W sex chromosome

Mank, Judith E.; Ellegren, Hans

Part of Trends in Ecology & Evolution, p. 389-391, 2007

• DOI for Parallel divergence and degradation of the avian W sex chromosome

Paternity and mating system in wolverines Gulo gulo

Hedmark, Eva; Persson, Jens; Segerström, Peter; Landa, Arild et al.

Part of Wildlife Biology, p. 13-30, 2007

• DOI for Paternity and mating system in wolverines Gulo gulo

Insertion Events of CR1 Retrotransposable Elements Elucidate the Phylogenetic Branching Order in Galliform Birds

Kaiser, Vera B.; van Tuinen, Marcel; Ellegren, Hans

Part of Molecular biology and evolution, p. 338-347, 2007

• DOI for Insertion Events of CR1 Retrotransposable Elements Elucidate the Phylogenetic Branching Order in Galliform Birds

Fast-X on the Z: Rapid evolution of sex-linked genes in birds

Mank, Judith E.; Axelsson, Erik; Ellegren, Hans

Part of Genome Research, p. 618-624, 2007

• DOI for Fast-X on the Z: Rapid evolution of sex-linked genes in birds

The genomic landscape of short insertion and deletion polymorphisms in the chicken (Gallus gallus) genome: A high frequency of deletions in tandem duplicates

Brandström, Mikael; Ellegren, Hans

Part of Genetics, p. 1691-1701, 2007

• DOI for The genomic landscape of short insertion and deletion polymorphisms in the chicken (Gallus gallus) genome: A high frequency of deletions in tandem duplicates

Effective size of fluctuating populations with two sexes and overlapping generations

Engen, Steinar; Ringsby, Thor Harald; Saether, Bernt-Erik; Lande, Russell et al.

Part of Evolution, p. 1873-1885, 2007

• DOI for Effective size of fluctuating populations with two sexes and overlapping generations

Rapid evolution of female-biased, but not male-biased, genes expressed in the avian brain

Mank, Judith E.; Hultin-Rosenberg, Lina; Axelsson, Erik; Ellegren, Hans

Part of Molecular biology and evolution, p. 2698-2706, 2007

• DOI for Rapid evolution of female-biased, but not male-biased, genes expressed in the avian brain

Unequal contribution of sexes in the origin of dog breeds.

Sundqvist, A-K; Björnerfeldt, S; Leonard, J A; Hailer, F et al.

Part of Genetics, p. 1121-8, 2006

Strong regional biases in nucleotide substitution in the chicken genome.

Webster, Matthew T; Axelsson, Erik; Ellegren, Hans

Part of Mol Biol Evol, p. 1203-16, 2006

A test of the miltiplex pre-amplification approach in microsatellite genotyping of wolverine faecal DNA

Hedmark, Eva; Ellegren, Hans

Part of Conservation Genetics, p. 289-293, 2006

Genetic identification of immigrants in the Scandinavian wolf population.

Seddon, JM; Sundqvist, AK; Björnerfeldt, S; Ellegren, H

Part of Conservation Genetics, p. 225-230, 2006

Nonrandom distribution of genes with sex-biased expression in the chicken genome

Kaiser, Vera B.; Ellegren, Hans

Part of Evolution, p. 1945-1951, 2006

• DOI for Nonrandom distribution of genes with sex-biased expression in the chicken genome

Substitution rate heterogeneity and the male mutation bias.

Berlin, Sofia; Brandström, Mikael; Backström, Niclas; Axelsson, Erik et al.

Part of Journal of Molecular Evolution, p. 226-33, 2006

Fast accumulation of nonsynonymous mutations on the female-specific W chromosome in birds.

Berlin, Sofia; Ellegren, Hans

Part of Journal of Molecular Evolution, p. 66-72, 2006

Bottlenecked but long-lived: high genetic diversity retained in white-tailed eagles upon recovery from population decline

Hailer, Frank; Helander, B.; Folkestad, A. O.; Ganusevich, S. A. et al.

Part of Biology Letters, p. 316-319, 2006

• DOI for Bottlenecked but long-lived: high genetic diversity retained in white-tailed eagles upon recovery from population decline

Levels of linkage disequilibrium in a wild bird population

Backström, Niclas; Qvarnström, Anna; Gustafsson, Lars; Ellegren, Hans

Part of Biology Letters, p. 435-438, 2006

• DOI for Levels of linkage disequilibrium in a wild bird population

Genetic mapping in a natural population of collared flycatchers (Ficedula albicollis): Conserved synteny but gene order rearrangements on the avian Z chromosome

Backström, Niclas; Brandström, Mikael; Gustafsson, Lars; Qvarnström, Anna et al.

Part of Genetics, p. 377-386, 2006

• DOI for Genetic mapping in a natural population of collared flycatchers (Ficedula albicollis): Conserved synteny but gene order rearrangements on the avian Z chromosome

Demographic effects have been more important than selection in shaping patterns of variation at MHC genes in European hedgehogs, Erinaceus europaeus and Erinaceus concolor.

Berggren, Karin; Ellegren, Hans; Hewitt, G. M.; Seddon, J. M.

Part of Heredity, p. 84-90, 2005

Gene conversion drives the evolution of HINTW, an ampliconic gene on the female-specific avian W chromosome.

Backström, Niclas; Ceplitis, Helene; Berlin, Sofia; Ellegren, Hans

Part of Mol Biol Evol, p. 1992-9, 2005

Cattle domestication in the Near East was followed by hybridization with aurochs bulls in Europe.

Götherström, Anders; Anderung, Cecilia; Hellborg, Linda; Elburg, Rengert et al.

Part of Proc Biol Sci, p. 2345-50, 2005

Understanding the phylogeographic patterns of European hedgehogs, Erinaceus concolor and E. europaeus using the MHC.

Berggren, Karin; Ellegren, H; Hewitt, G M; Seddon, J M

Part of Heredity, p. 84-90, 2005

Genetics of Iberian Bronze Age cattle remains indicate prehistoric contacts over the Strait of Gibraltar.

Anderung, Cecilia; Persson, P; Carretero, J. M.; Ortega, A. I. et al.

Part of Proceedings of the National Academy of Sciences USA, p. 8431-8435, 2005

Evolution: Natural selection in the evolution of humans and chimps.

Ellegren, Hans

Part of Curren Biology, 2005

The avian genome uncovered.

Ellegren, Hans

Part of Trends in Ecology and Evolution, p. 180-186, 2005

The dog has its day.

Ellegren, Hans

Part of Nature, p. 745-746, 2005

SNPs in ecological and conservation studies: a test in the Scandinavian wolf population.

Seddon, J M; Parker, H G; Ostrander, E A; Ellegren, H

Part of Mol Ecol, p. 503-11, 2005

Male-driven biased gene conversion governs the evolution of base composition in human alu repeats.

Webster, Matthew T; Smith, Nick G C; Hultin-Rosenberg, Lina; Arndt, Peter F et al.

Part of Mol Biol Evol, p. 1468-74, 2005

Microsatellite genotyping of DNA isolated from claws left on tanned carnivore hides.

Hedmark, Eva; Ellegren, Hans

Part of Int J Legal Med, p. 370-3, 2005

Comparison of the chicken and turkey genomes reveals a higher rate of nucleotide divergence on microchromosomes than macrochromosomes.

Axelsson, Erik; Webster, Matthew T; Smith, Nick G C; Burt, David W et al.

Part of Genome Res, p. 120-5, 2005

Lifetime reproductive success in relation to morphology in house sparrow (Passer domesticus)

Jensen, H; Sæther, B-E; Ringsby, T H; Tufto, J et al.

Part of Journal of Animal Ecology, p. 599-611, 2004

A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms.

Wong, Gane Ka-Shu; Liu, Bin; Wang, Jun; Zhang, Yong et al.

Part of Nature, p. 717-22, 2004

Gene expression, synteny, and local similarity in human noncoding mutation rates

Webster, Matthew T.; Smith, Nick G.C.; Lercher, M.J.; Ellegren, Hans

Part of Molecular biology and evolution, p. 1820-1830, 2004

• DOI for Gene expression, synteny, and local similarity in human noncoding mutation rates

Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution

Hillier, Ladeana W; Miller, Webb; Birney, Ewan; Warren, Wesley et al.

Part of Nature, p. 695-716, 2004

Evidence for turnover of functional noncoding DNA in mammalian genome evolution

Smith, Nick G.C.; Brandström, Mikael; Ellegren, Hans

Part of Genomics, p. 806-813, 2004

• DOI for Evidence for turnover of functional noncoding DNA in mammalian genome evolution

Reduced variation on the chicken Z chromosome

Sundström, Hannah; Webster, Matthew T; Ellegren, Hans

Part of Genetics, p. 377-385, 2004

• DOI for Reduced variation on the chicken Z chromosome

Sexual variation in heritability and genetic correlations of morphological traits in house sparrow (Passer domesticus)

Jensen, H; Sæther, B-E; Ringsby, T H; Tufto, J et al.

Part of Journal of Evolutionary Biology, p. 1296-1307, 2003

Cryptic population structure in a large, mobile mammalian predator: the Scandinavian lynx

Rueness, E K; Jorde, P E; Hellborg, L; Stenseth, N C et al.

Part of Molecular Ecology, p. 2623-2633, 2003

Ecological and genetic spatial structuring in the Canadian lynx

Rueness, E K; Stenseth, N C; O'Donoghue, M; Boutin, S et al.

Part of Nature, p. 69-72, 2003

Two centuries of the Scandinavian wolf population: patterns of genetic variability and migration during an era of dramatic decline

Flagstad, Ø; Walker, C W; Vilà, C; Sundqvist, A-K et al.

Part of Molecular Ecology, p. 869-880, 2003

Compositional evolution of the human and chimpanzee genomes

Webster, Matthew T.; Smith, Nick G.C.; Ellegren, Hans

Part of Molecular biology and evolution, p. 278-286, 2003

• DOI for Compositional evolution of the human and chimpanzee genomes

Making sense of genomic islands of differentiation in light of speciation

Wolf, Jochen B. W.; Ellegren, Hans

Part of Nature reviews genetics, p. 87-100, 2017

• DOI for Making sense of genomic islands of differentiation in light of speciation

Determinants of genetic diversity

Ellegren, Hans; Galtier, Nicolas

Part of Nature reviews genetics, p. 422-433, 2016

• DOI for Determinants of genetic diversity

Genomics advances the study of inbreeding depression in the wild

Kardos, Marty; Taylor, Helen R.; Ellegren, Hans; Luikart, Gordon et al.

Part of Evolutionary Applications, p. 1205-1218, 2016

• DOI for Genomics advances the study of inbreeding depression in the wild
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PSMC analysis of effective population sizes in molecular ecology and its application to black-and-white Ficedula flycatchers

Nadachowska-Brzyska, Krystyna; Burri, Reto; Smeds, Linnea; Ellegren, Hans

Part of Molecular Ecology, p. 1058-1072, 2016

• DOI for PSMC analysis of effective population sizes in molecular ecology and its application to black-and-white Ficedula flycatchers
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A high-density linkage map enables a second-generation collared flycatcher genome assembly and reveals the patterns of avian recombination rate variation and chromosomal evolution

Kawakami, Takeshi; Smeds, Linnea; Backstrom, Niclas; Husby, Arild et al.

Part of Molecular Ecology, p. 4035-4058, 2014

• DOI for A high-density linkage map enables a second-generation collared flycatcher genome assembly and reveals the patterns of avian recombination rate variation and chromosomal evolution
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Genome sequencing and population genomics in non-model organisms

Ellegren, Hans

Part of Trends in Ecology & Evolution, p. 51-63, 2014

• DOI for Genome sequencing and population genomics in non-model organisms

The evolutionary causes and consequences of sex-biased gene expression

Parsch, J.; Ellegren, Hans

Part of Nature reviews genetics, p. 83-87, 2013

• DOI for The evolutionary causes and consequences of sex-biased gene expression

Sex-chromosome evolution: recent progress and the influence of male and female heterogamety

Ellegren, Hans

Part of Nature reviews genetics, p. 157-166, 2011

• DOI for Sex-chromosome evolution: recent progress and the influence of male and female heterogamety

Speciation in Ficedula flycatchers

Qvarnström, Anna; Rice, Amber M.; Ellegren, Hans

Part of Philosophical Transactions of the Royal Society of London. Biological Sciences, p. 1841-1852, 2010

• DOI for Speciation in Ficedula flycatchers

The different levels of genetic diversity in sex chromosomes and autosomes

Ellegren, Hans

Part of Trends in Genetics, p. 278-284, 2009

• DOI for The different levels of genetic diversity in sex chromosomes and autosomes

Comparative genomics and the study of evolution by natural selection

Ellegren, Hans

Part of Molecular Ecology, p. 4586-4596, 2008

• DOI for Comparative genomics and the study of evolution by natural selection

Genetic basis of fitness differences in natural populations

Ellegren, Hans; Sheldon, Ben C.

Part of Nature, p. 169-175, 2008

• DOI for Genetic basis of fitness differences in natural populations

Molecular evolutionary genomics of birds

Hans, Ellegren

Part of Cytogenetic and Genome Research, p. 120-130, 2007

• DOI for Molecular evolutionary genomics of birds

Characteristics, causes and evolutionary consequences of male-biased mutation

Ellegren, Hans

Part of Proceedings of the Royal Society of London. Biological Sciences, p. 1-10, 2007

• DOI for Characteristics, causes and evolutionary consequences of male-biased mutation

The evolution of sex-biased genes and sex-biased gene expression

Ellegren, Hans; Parsch, John

Part of Nature reviews genetics, p. 689-698, 2007

• DOI for The evolution of sex-biased genes and sex-biased gene expression

Kungl. Vetenskaps-Societeten i 1800-talets Uppsala

Ellegren, Hans

Acta Universitatis Upsaliensis, 2022

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En akademi finner sin väg

Ellegren, Hans

Acta Universitatis Upsaliensis, 2020

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Hvad nytt och nyttigt: Tillkomsten av Sveriges första lärda sällskap: Kungl. Vetenskaps-Societeten i Uppsala

Ellegren, Hans

Acta Universitatis Upsaliensis, 2019

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Det svenska forskningslandskapet: Utfallet av 22 000 ansökningar till Vetenskapsrådets öppna utlysningar 2011–2015

Ellegren, Hans

Kungl. Vetenskaps-Societeten, 2017

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The Evolutionary Genomics of Birds

Ellegren, Hans

Part of Annual Review of Ecology, Evolution, and Systematics, VOL 44, p. 239-259, Annual Reviews, 2013

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Kungl. Vetenskaps-Societetens protokoll 1880–1901

Ellegren, Hans

Acta Universitatis Upsaliensis, 2022

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Kungl. Vetenskaps-Societetens protokoll 1803–1879

Ellegren, Hans

Acta Universitatis Upsaliensis, 2021

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DNA-analys av spillningsprover från järv: Genetisk metodutveckling, Slutrapport

Ekblom, Robert; Johansson, Malin; Magnusson, Jessica; Ellegren, Hans

2016

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Processer för ökad forskningskvalitet: Rapport från uppföljning av KoF-utvärderingarna och verksamhetens syn på forskningsutvärderingar

Ellegren, Hans

2015

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Om universitetet blir aktiebolag

Ahlbäck Öberg, Shirin; Bennich-Björkman, Li; Ellegren, Hans; Karlsson, Christer et al.

2013