Genome-wide Molecular Dating

Publications

Nucleotide usage biases distort inferences of the species tree
Borges, R., Boussau, B., Szöllősi, G. J. & Kosiol, C., Jan 2022, In: Genome Biology and Evolution. 14, 1, 13 p., evab290.
Research output: Contribution to journalArticlepeer-review

Polymorphism‐aware estimation of species trees and evolutionary forces from genomic sequences with RevBayes
Borges, R., Boussau, B., Höhna, S., Pereira, R. J. & Kosiol, C., 22 Sep 2022, (E-pub ahead of print) In: Methods in Ecology and Evolution. Early View, 8 p., 13980.
Research output: Contribution to journalArticlepeer-review

Consistency and identifiability of the polymorphism-aware phylogenetic models
Borges, R. & Kosiol, C., 7 Feb 2020, In: Journal of Theoretical Biology. 486, p. 1-6 6 p., 110074.
Research output: Contribution to journalArticlepeer-review

Polymorphism-aware species trees with advanced mutation models, bootstrap and rate heterogeneity
Schrempf, D., Minh, B. Q., von Haeseler, A. & Kosiol, C., Jun 2019, In: Molecular Biology and Evolution. 36, 6, p. 1294-1301 8 p.
Research output: Contribution to journalArticlepeer-review

Quantifying GC-biased gene conversion in great ape genomes using polymorphism-aware models
Borges, R., Szöllősi, G. & Kosiol, C., 1 Aug 2019, In: Genetics. 212, 4, p. 1321-1336
Research output: Contribution to journalArticlepeer-review

Selection acting on genomes
Kosiol, C. & Anisimova, M., 6 Jul 2019, (E-pub ahead of print) Evolutionary genomics: statistical and computational methods. Anisimova, M. (ed.). New York: Humana Press Inc., p. 373-397 25 p. (Methods in Molecular Biology; vol. 1910).
Research output: Chapter in Book/Report/Conference proceedingChapter

The comparative genomics and complex population history of Papio baboons
Rogers, J., Raveendran, M., Harris, R. A., Mailund, T., Leppälä, K., Athanasiadis, G., Schierup, M. H., Cheng, J., Munch, K., Walker, J. A., Konkel, M. K., Jordan, V., Steely, C. J., Beckstrom, T. O., Bergey, C., Burrell, A., Schrempf, D., Noll, A., Kothe, M., Kopp, G. H., Liu, Y., Murali, S., Billis, K., Martin, F. J., Muffato, M., Cox, L., Else, J., Disotell, T., Muzny, D. M., Phillips-conroy, J., Aken, B., Eichler, E. E., Marques-bonet, T., Kosiol, C., Batzer, M. A., Hahn, M. W., Tung, J., Zinner, D., Roos, C., Jolly, C. J., Gibbs, R. A. & Worley, K. C., 30 Jan 2019, In: Science Advances. 5, 1, 15 p., eaau6947.
Research output: Contribution to journalArticlepeer-review

Inference in population genetics using forward and backward, discrete and continuous time processes
Bergman, J., Schrempf, D., Kosiol, C. & Vogl, C., 14 Feb 2018, In: Journal of Theoretical Biology. 439, p. 166-180 15 p.
Research output: Contribution to journalArticlepeer-review

Adaptive sequence evolution is driven by biotic stress in a pair of orchid species (Dactylorhiza) with distinct ecological optima
Balao, F., Trucchi, E., Wolfe, T., Hao, B-H., Lorenzo, M. T., Baar, J., Sedman, L., Kosiol, C., Amman, F., Chase, M. W., Hedrén, M. & Paun, O., 4 Jul 2017, In: Molecular Ecology. 26, 14, p. 3649-3662 14 p.
Research output: Contribution to journalArticlepeer-review

Approximate maximum likelihood estimation for population genetic inference
Bertl, J., Ewing, G., Kosiol, C. & Futschik, A., 2 Nov 2017, In: Statistical Applications in Genetics and Molecular Biology. 16, 5-6, p. 291-312
Research output: Contribution to journalArticlepeer-review

Estimating the effective population size from temporal allele frequency changes in experimental evolution
Jónás, Á., Taus, T., Kosiol, C., Schlötterer, C. & Futschik, A., 11 Oct 2016, In: Genetics. 204, 2, p. 723-735 13 p.
Research output: Contribution to journalArticlepeer-review

Genetic diversity of species Fowl aviadenovirus D and Fowl aviadenovirus E
Marek, A., Kaján, G. L., Kosiol, C., Benkő, M., Schachner, A. & Hess, M., 1 Sep 2016, In: Journal of General Virology. 97, 9, p. 2323-32 10 p.
Research output: Contribution to journalArticlepeer-review

Reversible polymorphism-aware phylogenetic models and their application to tree inference
Schrempf, D., Minh, B. Q., De Maio, N., von Haeseler, A. & Kosiol, C., 21 Oct 2016, In: Journal of Theoretical Biology. 407, p. 362-370 9 p.
Research output: Contribution to journalArticlepeer-review

Gaussian process test for high-throughput sequencing time series: application to experimental evolution
Topa, H., Jónás, Á., Kofler, R., Kosiol, C. & Honkela, A., 1 Jun 2015, In: Bioinformatics. 31, 11, p. 1762-1770 9 p.
Research output: Contribution to journalArticlepeer-review

PoMo: an allele frequency-based approach for species tree estimation
De Maio, N., Schrempf, D. & Kosiol, C., Nov 2015, In: Systematic Biology. 64, 6, p. 1018-1031 14 p.
Research output: Contribution to journalArticlepeer-review

Complete genome sequences of pigeon adenovirus 1 and duck adenovirus 2 extend the number of species within the genus Aviadenovirus
Marek, A., Kaján, G. L., Kosiol, C., Harrach, B., Schlötterer, C. & Hess, M., Aug 2014, In: Virology. 462-463, p. 107-14 8 p.
Research output: Contribution to journalArticlepeer-review

The common marmoset genome provides insight into primate biology and evolution
The Marmoset Genome Sequencing and Analysis Consortium, Aug 2014, In: Nature Genetics. 46, 8, p. 850-857 8 p.
Research output: Contribution to journalArticlepeer-review

The life cycle of Drosophila orphan genes
Palmieri, N., Kosiol, C. & Schlötterer, C., 19 Feb 2014, In: eLife. 3, 21 p., e01311.
Research output: Contribution to journalArticlepeer-review

Estimating empirical codon hidden Markov models
De Maio, N., Holmes, I., Schlötterer, C. & Kosiol, C., Mar 2013, In: Molecular Biology and Evolution. 30, 3, p. 725-36 12 p.
Research output: Contribution to journalArticlepeer-review

Linking great apes genome evolution across time scales using polymorphism-aware phylogenetic models
De Maio, N., Schlötterer, C. & Kosiol, C., Oct 2013, In: Molecular Biology and Evolution. 30, 10, p. 2249-62 14 p.
Research output: Contribution to journalArticlepeer-review

Population genomic analysis reveals a rich speciation and demographic history of orang-utans (Pongo pygmaeus and Pongo abelii)
Ma, X., Kelley, J. L., Eilertson, K., Musharoff, S., Degenhardt, J. D., Martins, A. L., Vinar, T., Kosiol, C., Siepel, A., Gutenkunst, R. N. & Bustamante, C. D., 23 Oct 2013, In: PLoS One. 8, 10, 11 p., e77175.
Research output: Contribution to journalArticlepeer-review