|Whole-genome analyses resolve early branches in the tree of life of modern birds|
ED Jarvis, S Mirarab, AJ Aberer, B Li, P Houde, C Li, SYW Ho, ...
Science 346 (6215), 1320-1331, 2014
|The genome of a songbird|
WC Warren, DF Clayton, H Ellegren, AP Arnold, LDW Hillier, A Künstner, ...
Nature 464 (7289), 757-762, 2010
|The genomic landscape of species divergence in Ficedula flycatchers|
H Ellegren, L Smeds, R Burri, PI Olason, N Backström, T Kawakami, ...
Nature 491 (7426), 756-760, 2012
|Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers|
R Burri, A Nater, T Kawakami, CF Mugal, PI Olason, L Smeds, A Suh, ...
Genome research 25 (11), 1656-1665, 2015
|ConDeTri-a content dependent read trimmer for Illumina data|
L Smeds, A Künstner
PloS one 6 (10), 2011
|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|
T Kawakami, L Smeds, N Backström, A Husby, A Qvarnström, CF Mugal, ...
Molecular ecology 23 (16), 4035-4058, 2014
|The dynamics of incomplete lineage sorting across the ancient adaptive radiation of neoavian birds|
A Suh, L Smeds, H Ellegren
PLoS biology 13 (8), 2015
|Demographic divergence history of pied flycatcher and collared flycatcher inferred from whole-genome re-sequencing data|
K Nadachowska-Brzyska, R Burri, PI Olason, T Kawakami, L Smeds, ...
PLoS genetics 9 (11), 2013
|Temporal dynamics of avian populations during Pleistocene revealed by whole-genome sequences|
K Nadachowska-Brzyska, C Li, L Smeds, G Zhang, H Ellegren
Current Biology 25 (10), 1375-1380, 2015
|PSMC analysis of effective population sizes in molecular ecology and its application to black‐and‐white Ficedula flycatchers|
K Nadachowska‐Brzyska, R Burri, L Smeds, H Ellegren
Molecular ecology 25 (5), 1058-1072, 2016
|Resolving evolutionary relationships in closely related species with whole-genome sequencing data|
A Nater, R Burri, T Kawakami, L Smeds, H Ellegren
Systematic Biology 64 (6), 1000-1017, 2015
|Direct estimate of the rate of germline mutation in a bird|
L Smeds, A Qvarnström, H Ellegren
Genome research 26 (9), 1211-1218, 2016
|Evolutionary analysis of the female-specific avian W chromosome|
L Smeds, V Warmuth, P Bolivar, S Uebbing, R Burri, A Suh, A Nater, ...
Nature communications 6, 7330, 2015
|High-resolution mapping of crossover and non-crossover recombination events by whole-genome re-sequencing of an avian pedigree|
L Smeds, CF Mugal, A Qvarnström, H Ellegren
PLoS genetics 12 (5), 2016
|Patterns of sequencing coverage bias revealed by ultra-deep sequencing of vertebrate mitochondria|
R Ekblom, L Smeds, H Ellegren
BMC genomics 15 (1), 467, 2014
|Whole‐genome patterns of linkage disequilibrium across flycatcher populations clarify the causes and consequences of fine‐scale recombination rate variation in birds|
T Kawakami, CF Mugal, A Suh, A Nater, R Burri, L Smeds, H Ellegren
Molecular ecology 26 (16), 4158-4172, 2017
|Genome-wide association mapping in a wild avian population identifies a link between genetic and phenotypic variation in a life-history trait|
A Husby, T Kawakami, L Rönnegård, L Smeds, H Ellegren, A Qvarnström
Proceedings of the Royal Society B: Biological Sciences 282 (1806), 20150156, 2015
|Genomic identification and characterization of the pseudoautosomal region in highly differentiated avian sex chromosomes|
L Smeds, T Kawakami, R Burri, P Bolivar, A Husby, A Qvarnström, ...
Nature communications 5 (1), 1-7, 2014
|Abundant recent activity of retrovirus‐like retrotransposons within and among flycatcher species implies a rich source of structural variation in songbird genomes|
A Suh, L Smeds, H Ellegren
Molecular ecology 27 (1), 99-111, 2018
|A transcriptome derived female-specific marker from the invasive western mosquitofish (Gambusia affinis)|
DK Lamatsch, S Adolfsson, AM Senior, G Christiansen, M Pichler, Y Ozaki, ...
PLoS One 10 (2), 2015