| 2026 |
Johnson, O. L., Tobler, R., Schmidt, J. M., & Huber, C. D. (2026). Genetic Footprints of Seasonal Fluctuating Selection: A Comparison with Established Selection Forms. Genome Biology and Evolution, 18(4), evag082-1-evag082-21. DOI |
| 2026 |
Ravishankar, S., Nguyen, N. C., Taufik, L., Michielsen, N. M., Bergström, A., Tobler, R., . . . Souilmi, Y. (2026). Paleogenomics‐Informed Inferences of European Dog Admixture Enables Scalable Dingo Conservation. Conservation Letters, 19(3), e70052-1-e70052-9. DOI |
| 2026 |
Barry, C., Muir, B., Backhaus, V., Coyne, C., Donnelly, E., Evans-Illidge, E., . . . Bradshaw, C. J. A. (2026). Crediting and citing Indigenous Knowledges within research. BioScience, 76(6), 501-512. DOI Scopus1 WoS3 |
| 2025 |
Davidson, R., Roca-Rada, X., Ravishankar, S., Taufik, L., Haarkötter, C., Collen, E., . . . Llamas, B. (2025). Optimized in-solution enrichment of over a million ancient human SNPs. Genome Biology, 26(1), 190-1-190-20. DOI Scopus6 WoS6 Europe PMC9 |
| 2025 |
Purnomo, G. A., Teixeira, J. C., Sudoyo, H., Llamas, B., & Tobler, R. (2025). Benchmarking Imputed Low Coverage Genomes in a Human Population Genetics Context. Molecular Ecology Resources, 25(8), e70007-1-e70007-12. DOI Scopus1 WoS1 |
| 2025 |
Roca-Rada, X., Davidson, R., Williams, M. P., Villalba-Mouco, V., Carvalho, A. F., Ravishankar, S., . . . Teixeira, J. C. (2025). The genetic history of Portugal over the past 5,000 years.. Genome Biology, 26(1), 248-1-248-39. DOI Scopus9 WoS9 Europe PMC3 |
| 2025 |
Souilmi, Y., Oliva, A., Davidson, R., Williams, M. P., Ravishankar, S., Roca-Rada, X., . . . Llamas, B. (2025). Lessons learned: Recommendations for reproducible paleogenomic data analyses.. Am J Hum Genet, 112(12), 2830-2841. DOI |
| 2024 |
Johnson, O. L., Tobler, R., Schmidt, J. M., & Huber, C. D. (2024). Population genetic simulation: Benchmarking frameworks for non-standard models of natural selection. Molecular Ecology Resources, 24(3), e13930-1-e13930-13. DOI Scopus4 WoS4 Europe PMC4 |
| 2024 |
Souilmi, Y., Wasef, S., Williams, M. P., Conroy, G., Bar, I., Bover, P., . . . Mitchell, K. J. (2024). Ancient genomes reveal over two thousand years of dingo population structure. Proceedings of the National Academy of Sciences, 121(30), e2407584121-1-e2407584121-12. DOI Scopus12 WoS12 Europe PMC6 |
| 2024 |
Purnomo, G. A., Kealy, S., O'Connor, S., Schapper, A., Shaw, B., Llamas, B., . . . Tobler, R. (2024). The genetic origins and impacts of historical Papuan migrations into Wallacea. Proceedings of the National Academy of Sciences of USA, 121(52), e2412355121. DOI Scopus9 WoS7 Europe PMC3 |
| 2023 |
Taufik, L., Teixeira, J. C., Llamas, B., Sudoyo, H., Tobler, R., & Purnomo, G. A. (2023). Human Genetic Research in Wallacea and Sahul: Recent Findings and Future Prospects. Genes, 13(12), 1-11. DOI Scopus6 WoS4 Europe PMC3 |
| 2023 |
Johnson, O. L., Tobler, R., Schmidt, J. M., & Huber, C. D. (2023). Fluctuating selection and the determinants of genetic variation. Trends in Genetics, 39(6), 491-504. DOI Scopus43 WoS42 Europe PMC47 |
| 2023 |
Tobler, R., Souilmi, Y., Huber, C. D., Bean, N., Turney, C. S. M., Grey, S. T., & Cooper, A. (2023). The role of genetic selection and climatic factors in the dispersal of anatomically modern humans out of Africa.. Proc Natl Acad Sci U S A, 120(22), e2213061120. DOI Scopus25 WoS19 Europe PMC17 |
| 2023 |
Davidson, R., Williams, M. P., Roca-Rada, X., Kassadjikova, K., Tobler, R., Fehren-Schmitz, L., & Llamas, B. (2023). Allelic bias when performing in-solution enrichment of ancient human DNA. Molecular Ecology Resources, 23(8), 1823-1840. DOI Scopus19 WoS19 Europe PMC16 |
| 2022 |
Souilmi, Y., Tobler, R., Johar, A., Williams, M., Grey, S. T., Schmidt, J., . . . Huber, C. D. (2022). Admixture has obscured signals of historical hard sweeps in humans. Nature Ecology & Evolution, 6(12), 2003-2015. DOI Scopus23 WoS22 Europe PMC36 |
| 2021 |
Cooper, A., Turney, C. S. M., Palmer, J., Hogg, A., McGlone, M., Wilmshurst, J., . . . Zech, R. (2021). A global environmental crisis 42,000 years ago. Science in China Series C: Life Sciences, 371(6531), 811-818. DOI Scopus99 WoS87 Europe PMC23 |
| 2021 |
Lan, D., Tobler, R., Souilmi, Y., & Llamas, B. (2021). Genozip - a universal extensible genomic data compressor. Bioinformatics, 37(16), 2225-2230. DOI Scopus40 WoS33 Europe PMC32 |
| 2021 |
Aguiar Macedo Teixeira, J. C., Jacobs, G. S., Stringer, C., Tuke, S., Hudjashov, G., Purnomo, G. A., . . . Helgen, K. M. (2021). Widespread Denisovan ancestry in Island Southeast Asia but no evidence of substantial super-archaic hominin admixture. Nature Ecology & Evolution, 5(5), 616-624. DOI Scopus46 WoS34 Europe PMC20 |
| 2021 |
Oliva, A., Tobler, R., Cooper, A., Llamas, B., & Souilmi, Y. (2021). Systematic benchmark of ancient DNA read mapping. Briefings in bioinformatics, 22(5), 1-12. DOI Scopus43 WoS39 Europe PMC41 |
| 2021 |
Souilmi, Y., Lauterbur, M. E., Tobler, R., Huber, C. D., Johar, A. S., Moradi, S. V., . . . Enard, D. (2021). An ancient viral epidemic involving host coronavirus interacting genes more than 20,000 years ago in East Asia. Current Biology, 31(16), 3504-3514. DOI Scopus65 WoS63 Europe PMC64 |
| 2021 |
Purnomo, G. A., Mitchell, K. J., O'Connor, S., Kealy, S., Taufik, L., Schiller, S., . . . Tobler, R. (2021). Mitogenomes reveal two major influxes of Papuan ancestry across Wallacea following the last glacial maximum and Austronesian contact. Genes, 12(7), 1-21. DOI Scopus30 WoS28 Europe PMC18 |
| 2021 |
Oliva, A., Tobler, R., Llamas, B., & Souilmi, Y. (2021). BWA-mem is not the best aligner for ancient DNA short reads. DOI Europe PMC2 |
| 2021 |
Herrando-Pérez, S., Tobler, R., & Huber, C. D. (2021). smartsnp, an r package for fast multivariate analyses of big genomic data. Methods in Ecology and Evolution, 12(11), 2084-2093. DOI Scopus24 WoS24 |
| 2021 |
Souilmi, Y., Lauterbur, M. E., Tobler, R., Huber, C. D., Johar, A. S., Moradi, S. V., . . . Enard, D. (2021). An ancient viral epidemic involving host coronavirus interacting genes more than 20,000 years ago in East Asia.. Curr Biol, 31(16), 3704. DOI Scopus4 WoS2 Europe PMC11 |
| 2021 |
Alpaslan-Roodenberg, S., Anthony, D., Babiker, H., Bánffy, E., Booth, T., Capone, P., . . . Zahir, M. (2021). Ethics of DNA research on human remains: five globally applicable guidelines. Nature, 599(7883), 41-46. DOI Scopus111 WoS91 Europe PMC67 |
| 2021 |
Cooper, A., Turney, C. S. M., Palmer, J., Hogg, A., McGlone, M., Wilmshurst, J., . . . Zech, R. (2021). Response to Comment on "A global environmental crisis 42,000 years ago". Science New York N Y, 374(6570), eabi9756. DOI Scopus2 WoS2 Europe PMC2 |
| 2021 |
Cooper, A., Turney, C. S. M., Palmer, J., Hogg, A., McGlone, M., Wilmshurst, J., . . . Zech, R. (2021). Response to comment on “A global environmental crisis 42,000 years ago”. Science, 374(6570), 3 pages. DOI Scopus2 WoS1 |
| 2021 |
Oliva, A., Tobler, R., Llamas, B., & Souilmi, Y. (2021). Additional evaluations show that specific BWA-aln settings still outperform BWA-mem for ancient DNA data alignment. Ecology and Evolution, 11(24), 18743-18748. DOI Scopus23 WoS21 Europe PMC24 |
| 2020 |
Tobler, R., Johar, A., Huber, C., & Souilmi, Y. (2020). PolyLinkR: A linkage-sensitive gene set enrichment R package. |
| 2020 |
Lan, D., Tobler, R., Souilmi, Y., & Llamas, B. (2020). genozip: a fast and efficient compression tool for VCF files. Bioinformatics, 36(13), 4091-4092. DOI Scopus12 WoS10 Europe PMC14 |
| 2020 |
Teixeira, J., Jacobs, G., Stringer, C., Tuke, J., Hudjashov, G., Purnomo, G., . . . Helgen, K. (2020). Introgression, hominin dispersal and megafaunal survival in Late Pleistocene Island Southeast Asia. DOI |
| 2020 |
Souilmi, Y., Tobler, R., Johar, A., Williams, M., Grey, S., Schmidt, J., . . . Cooper, A. (2020). Ancient human genomes reveal a hidden history of strong selection in Eurasia. DOI Europe PMC1 |
| 2019 |
Barghi, N., Tobler, R., Nolte, V., Jakšić, A. M., Mallard, F., Otte, K. A., . . . Schlötterer, C. (2019). Genetic redundancy fuels polygenic adaptation in Drosophila. PLoS Biology, 17(2), 31 pages. DOI Scopus198 WoS196 Europe PMC258 |
| 2019 |
Richards, S., Mitchell, K., Tobler, R., & Cooper, A. (2019). Recombinase Polymerase Amplification (RPA) versus PCR for ancient DNA library amplification. DOI Europe PMC1 |
| 2019 |
Richards, S. M., Mitchell, K. J., Tobler, R., & Cooper, A. (2019). Recombinase Polymerase Amplification (RPA) versus PCR for ancient DNA library amplification. DOI |
| 2018 |
Mallard, F., Nolte, V., Tobler, R., Kapun, M., & Schlötterer, C. (2018). A simple genetic basis of adaptation to a novel thermal environment results in complex metabolic rewiring in Drosophila. Genome Biology, 19(1), 119-1-119-15. DOI Scopus76 WoS81 Europe PMC80 |
| 2018 |
Rohrlach, A. B., Bean, N., Glonek, G., Holland, B., Tobler, R., Tuke, J., & Cooper, A. (2018). Unsupervized Quantification of Demographic Structure for Single-copy Alignments. DOI |
| 2018 |
Kofler, R., Senti, K. -A., Nolte, V., Tobler, R., & Schlötterer, C. (2018). Molecular dissection of a natural transposable element invasion.. Genome research, 28(6), 824-835. DOI Scopus55 WoS52 Europe PMC69 |
| 2018 |
Barghi, N., Tobler, R., Nolte, V., Jaksic, A. M., Mallard, F., Otte, K. A., . . . Schlöetterer, C. (2018). Polygenic adaptation fuels genetic redundancy in <i>Drosophila</i>. DOI |
| 2017 |
Tobler, R., Rohrlach, A., Soubrier, J., Bover Arbos, P., Llamas, B., Tuke, J., . . . Cooper, A. (2017). Aboriginal mitogenomes reveal 50,000 years of regionalism in Australia. Nature, 544(7649), 180-184. DOI Scopus174 WoS159 Europe PMC75 |
| 2017 |
Barghi, N., Tobler, R., Nolte, V., & Schlötterer, C. (2017). Drosophila simulans: a species with improved resolution in evolve and resequence studies. G3: Genes, Genomes, Genetics, 7(7), 2337-2343. DOI Scopus22 WoS23 Europe PMC23 |
| 2017 |
Tobler, R., Nolte, V., & Schlötterer, C. (2017). High rate of translocation-based gene birth on the Drosophila Y chromosome. Proceedings of the National Academy of Sciences of the United States of America, 114(44), 11721-11726. DOI Scopus34 WoS35 Europe PMC36 |
| 2017 |
Mallard, F., Nolte, V., Tobler, R., Kapun, M., & Schlötterer, C. (2017). A simple genetic basis of adaptation to a novel thermal environment results in complex metabolic rewiring in Drosophila. DOI Europe PMC1 |
| 2016 |
Nouhaud, P., Tobler, R., Nolte, V., & Schlötterer, C. (2016). Ancestral population reconstitution from isofemale lines as a tool for experimental evolution. Ecology and Evolution, 6(20), 7169-7175. DOI Scopus20 WoS22 Europe PMC24 |
| 2016 |
Schlötterer, C., Kofler, R., Versace, E., Tobler, R., & Franssen, S. U. (2016). Erratum: Combining experimental evolution with next-generation sequencing: A powerful tool to study adaptation from standing genetic variation (Heredity (2015) 114 (431-440)). Heredity, 116(2), 248. DOI Scopus7 WoS7 Europe PMC11 |
| 2016 |
Bergland, A. O., Tobler, R., González, J., Schmidt, P., & Petrov, D. (2016). Secondary contact and local adaptation contribute to genome-wide patterns of clinal variation in Drosophila melanogaster. Molecular Ecology, 25(5), 1157-1174. DOI Scopus103 WoS106 Europe PMC130 |
| 2015 |
Schlötterer, C., Kofler, R., Versace, E., Tobler, R., & Franssen, S. (2015). Combining experimental evolution with next-generation sequencing: a powerful tool to study adaptation from standing genetic variation. Heredity, 114(5), 431-440. DOI Scopus205 WoS208 Europe PMC199 |
| 2015 |
Franssen, S. U., Nolte, V., Tobler, R., & Schlötterer, C. (2015). Patterns of linkage disequilibrium and long range hitchhiking in evolving experimental Drosophila melanogaster populations.. Molecular biology and evolution, 32(2), 495-509. DOI Scopus65 WoS68 Europe PMC76 |
| 2015 |
Tobler, R., Hermisson, J., & Schlötterer, C. (2015). Parallel trait adaptation across opposing thermal environments in experimental Drosophila melanogaster populations.. Evolution; international journal of organic evolution, 69(7), 1745-1759. DOI Scopus33 WoS33 Europe PMC30 |
| 2014 |
Schlötterer, C., Tobler, R., Kofler, R., & Nolte, V. (2014). Sequencing pools of individuals - mining genome-wide polymorphism data without big funding.. Nature reviews. Genetics, 15(11), 749-763. DOI Scopus577 WoS565 Europe PMC527 |
| 2014 |
Tobler, R., Franssen, S. U., Kofler, R., Orozco-Terwengel, P., Nolte, V., Hermisson, J., & Schlötterer, C. (2014). Massive habitat-specific genomic response in D. melanogaster populations during experimental evolution in hot and cold environments.. Molecular biology and evolution, 31(2), 364-375. DOI Scopus112 WoS114 Europe PMC116 |
| 2014 |
Versace, E., Nolte, V., Pandey, R. V., Tobler, R., & Schlötterer, C. (2014). Experimental evolution reveals habitat-specific fitness dynamics among Wolbachia clades in Drosophila melanogaster.. Molecular ecology, 23(4), 802-814. DOI Scopus34 WoS35 Europe PMC32 |
| 2014 |
Bergland, A., Tobler, R., Gonzalez, J., Schmidt, P., & Petrov, D. (2014). Secondary contact and local adaptation contribute to genome-wide patterns of clinal variation in Drosophila melanogaster. DOI Europe PMC3 |
| 2013 |
Bastide, H., Betancourt, A., Nolte, V., Tobler, R., Stöbe, P., Futschik, A., & Schlötterer, C. (2013). A Genome-Wide, Fine-Scale Map of Natural Pigmentation Variation in Drosophila melanogaster. Plos Genetics, 9(6), 8 pages. DOI Scopus124 WoS117 Europe PMC132 |
| 2010 |
Tobler, R., Pledger, S., & Linklater, W. (2010). No evidence for ovarian synchrony or asynchrony in hamadryas baboons. Animal Behaviour, 80(5), 829-837. DOI Scopus9 WoS8 |