Herbarium genomics: plastome sequence assembly from a range of herbarium specimens using an Iterative Organelle Genome Assembly pipeline
Bakker, Freek T, Lei, Di, Yu, Jiaying, Mohammadin, Setareh, Wei, Zhen, Kerke, Sara, Gravendeel, Barbara, Nieuwenhuis, Mathijs, Staats, Martijn, Alquezar‐Planas, David E, Holmer, Rens
Published in Biological journal of the Linnean Society (01.01.2016)
Published in Biological journal of the Linnean Society (01.01.2016)
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Future‐proofing the koala: Synergising genomic and environmental data for effective species management
Lott, Matthew J., Wright, Belinda R., Neaves, Linda E., Frankham, Greta J., Dennison, Siobhan, Eldridge, Mark D. B., Potter, Sally, Alquezar‐Planas, David E., Hogg, Carolyn J., Belov, Katherine, Johnson, Rebecca N., Waits, Lisette
Published in Molecular ecology (01.06.2022)
Published in Molecular ecology (01.06.2022)
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Retroviral integrations contribute to elevated host cancer rates during germline invasion
McEwen, Gayle K., Alquezar-Planas, David E., Dayaram, Anisha, Gillett, Amber, Tarlinton, Rachael, Mongan, Nigel, Chappell, Keith J., Henning, Joerg, Tan, Milton, Timms, Peter, Young, Paul R., Roca, Alfred L., Greenwood, Alex D.
Published in Nature communications (26.02.2021)
Published in Nature communications (26.02.2021)
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Reversing the decline of threatened koala (Phascolarctos cinereus) populations in New South Wales: Using genomics to enhance conservation outcomes
Lott, Matthew J., Frankham, Greta J., Eldridge, Mark D. B., Alquezar‐Planas, David E., Donnelly, Lily, Zenger, Kyall R., Leigh, Kellie A., Kjeldsen, Shannon R., Field, Matt A., Lemon, John, Lunney, Daniel, Crowther, Mathew S., Krockenberger, Mark B., Fisher, Mark, Neaves, Linda E.
Published in Ecology and evolution (01.08.2024)
Published in Ecology and evolution (01.08.2024)
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MobiSeq: De novo SNP discovery in model and non‐model species through sequencing the flanking region of transposable elements
Rey‐Iglesia, Alba, Gopalakrishan, Shyam, Carøe, Christian, Alquezar‐Planas, David E., Ahlmann Nielsen, Anne, Röder, Timo, Bruhn Pedersen, Lene, Næsborg‐Nielsen, Christina, Sinding, Mikkel‐Holger S., Fredensborg Rath, Martin, Li, Zhipeng, Petersen, Bent, Gilbert, M. Thomas P., Bunce, Michael, Mourier, Tobias, Hansen, Anders Johannes
Published in Molecular ecology resources (01.03.2019)
Published in Molecular ecology resources (01.03.2019)
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Using phylogenetics to explore interspecies genetic rescue options for a critically endangered parrot
Hogg, Carolyn J., Morrison, Caitlin, Dudley, Jessica S., Alquezar‐Planas, David E., Beasley‐Hall, Perry G., Magrath, Michael J. L., Ho, Simon Y. W., Lo, Nathan, Johnson, Rebecca N., Grueber, Catherine E.
Published in Conservation science and practice (01.09.2021)
Published in Conservation science and practice (01.09.2021)
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Degradation and remobilization of endogenous retroviruses by recombination during the earliest stages of a germ-line invasion
Löber, Ulrike, Hobbs, Matthew, Dayaram, Anisha, Tsangaras, Kyriakos, Jones, Kiersten, Alquezar-Planas, David E., Ishida, Yasuko, Meers, Joanne, Mayer, Jens, Quedenau, Claudia, Chen, Wei, Johnson, Rebecca N., Timms, Peter, Young, Paul R., Roca, Alfred L., Greenwood, Alex D.
Published in Proceedings of the National Academy of Sciences - PNAS (21.08.2018)
Published in Proceedings of the National Academy of Sciences - PNAS (21.08.2018)
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Traces of ATCV-1 associated with laboratory component contamination
Kjartansdóttir, Kristín Rós, Friis-Nielsen, Jens, Asplund, Maria, Mollerup, Sarah, Mourier, Tobias, Jensen, Randi Holm, Hansen, Thomas Arn, Rey-Iglesia, Alba, Richter, Stine Raith, Alquezar-Planas, David E., Olsen, Pernille V. S., Vinner, Lasse, Fridholm, Helena, Sicheritz-Pontén, Thomas, Nielsen, Lars Peter, Brunak, Søren, Willerslev, Eske, Izarzugaza, Jose M. G., Hansen, Anders Johannes
Published in Proceedings of the National Academy of Sciences - PNAS (03.03.2015)
Published in Proceedings of the National Academy of Sciences - PNAS (03.03.2015)
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Deep sequencing of RNA from ancient maize kernels
Fordyce, Sarah L, Ávila-Arcos, Maria C, Rasmussen, Morten, Cappellini, Enrico, Romero-Navarro, J Alberto, Wales, Nathan, Alquezar-Planas, David E, Penfield, Steven, Brown, Terence A, Vielle-Calzada, Jean-Philippe, Montiel, Rafael, Jørgensen, Tina, Odegaard, Nancy, Jacobs, Michael, Arriaza, Bernardo, Higham, Thomas F G, Ramsey, Christopher Bronk, Willerslev, Eske, Gilbert, M Thomas P
Published in PloS one (11.01.2013)
Published in PloS one (11.01.2013)
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Discovery of a divergent HPIV4 from respiratory secretions using second and third generation metagenomic sequencing
Alquezar-Planas, David E., Mourier, Tobias, Bruhn, Christian A. W., Hansen, Anders J., Vitcetz, Sarah Nathalie, Mørk, Søren, Gorodkin, Jan, Nielsen, Hanne Abel, Guo, Yan, Sethuraman, Anand, Paxinos, Ellen E., Shan, Tongling, Delwart, Eric L., Nielsen, Lars P.
Published in Scientific reports (02.09.2013)
Published in Scientific reports (02.09.2013)
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Comprehensive profiling of retroviral integration sites using target enrichment methods from historical koala samples without an assembled reference genome
Cui, Pin, Löber, Ulrike, Alquezar-Planas, David E, Ishida, Yasuko, Courtiol, Alexandre, Timms, Peter, Johnson, Rebecca N, Lenz, Dorina, Helgen, Kristofer M, Roca, Alfred L, Hartman, Stefanie, Greenwood, Alex D
Published in PeerJ (San Francisco, CA) (28.03.2016)
Published in PeerJ (San Francisco, CA) (28.03.2016)
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High diversity of picornaviruses in rats from different continents revealed by deep sequencing
Hansen, Thomas Arn, Mollerup, Sarah, Nguyen, Nam-Phuong, White, Nicole E, Coghlan, Megan, Alquezar-Planas, David E, Joshi, Tejal, Jensen, Randi Holm, Fridholm, Helena, Kjartansdóttir, Kristín Rós, Mourier, Tobias, Warnow, Tandy, Belsham, Graham J, Bunce, Michael, Willerslev, Eske, Nielsen, Lars Peter, Vinner, Lasse, Hansen, Anders Johannes
Published in Emerging microbes & infections (17.08.2016)
Published in Emerging microbes & infections (17.08.2016)
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Adaptation and conservation insights from the koala genome
Johnson, Rebecca N., O’Meally, Denis, Chen, Zhiliang, Etherington, Graham J., Ho, Simon Y. W., Nash, Will J., Grueber, Catherine E., Cheng, Yuanyuan, Whittington, Camilla M., Dennison, Siobhan, Peel, Emma, Haerty, Wilfried, O’Neill, Rachel J., Colgan, Don, Russell, Tonia L., Alquezar-Planas, David E., Attenbrow, Val, Bragg, Jason G., Brandies, Parice A., Chong, Amanda Yoon-Yee, Deakin, Janine E., Di Palma, Federica, Duda, Zachary, Eldridge, Mark D. B., Ewart, Kyle M., Hogg, Carolyn J., Frankham, Greta J., Georges, Arthur, Gillett, Amber K., Govendir, Merran, Greenwood, Alex D., Hayakawa, Takashi, Helgen, Kristofer M., Hobbs, Matthew, Holleley, Clare E., Heider, Thomas N., Jones, Elizabeth A., King, Andrew, Madden, Danielle, Graves, Jennifer A. Marshall, Morris, Katrina M., Neaves, Linda E., Patel, Hardip R., Polkinghorne, Adam, Renfree, Marilyn B., Robin, Charles, Salinas, Ryan, Tsangaras, Kyriakos, Waters, Paul D., Waters, Shafagh A., Wright, Belinda, Wilkins, Marc R., Timms, Peter, Belov, Katherine
Published in Nature genetics (01.08.2018)
Published in Nature genetics (01.08.2018)
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Koala methylomes reveal divergent and conserved DNA methylation signatures of X chromosome regulation
Singh, Devika, Sun, Dan, King, Andrew G, Alquezar-Planas, David E, Johnson, Rebecca N, Alvarez-Ponce, David, Yi, Soojin V
Published in Proceedings of the Royal Society. B, Biological sciences (24.02.2021)
Published in Proceedings of the Royal Society. B, Biological sciences (24.02.2021)
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High-Throughput Sequencing-Based Investigation of Viruses in Human Cancers by Multienrichment Approach
Mollerup, Sarah, Asplund, Maria, Friis-Nielsen, Jens, Kjartansdóttir, Kristín Rós, Fridholm, Helena, Hansen, Thomas Arn, Herrera, José Alejandro Romero, Barnes, Christopher James, Jensen, Randi Holm, Richter, Stine Raith, Nielsen, Ida Broman, Pietroni, Carlotta, Alquezar-Planas, David E, Rey-Iglesia, Alba, Olsen, Pernille V S, Rajpert-De Meyts, Ewa, Groth-Pedersen, Line, von Buchwald, Christian, Jensen, David H, Gniadecki, Robert, Høgdall, Estrid, Langhoff, Jill Levin, Pete, Imre, Vereczkey, Ildikó, Baranyai, Zsolt, Dybkaer, Karen, Johnsen, Hans Erik, Steiniche, Torben, Hokland, Peter, Rosenberg, Jacob, Baandrup, Ulrik, Sicheritz-Pontén, Thomas, Willerslev, Eske, Brunak, Søren, Lund, Ole, Mourier, Tobias, Vinner, Lasse, Izarzugaza, Jose M G, Nielsen, Lars Peter, Hansen, Anders Johannes
Published in The Journal of infectious diseases (13.09.2019)
Published in The Journal of infectious diseases (13.09.2019)
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Identification of Known and Novel Recurrent Viral Sequences in Data from Multiple Patients and Multiple Cancers
Friis-Nielsen, Jens, Kjartansdóttir, Kristín Rós, Mollerup, Sarah, Asplund, Maria, Mourier, Tobias, Jensen, Randi Holm, Hansen, Thomas Arn, Rey-Iglesia, Alba, Richter, Stine Raith, Nielsen, Ida Broman, Alquezar-Planas, David E, Olsen, Pernille V S, Vinner, Lasse, Fridholm, Helena, Nielsen, Lars Peter, Willerslev, Eske, Sicheritz-Pontén, Thomas, Lund, Ole, Hansen, Anders Johannes, Izarzugaza, Jose M G, Brunak, Søren
Published in Viruses (19.02.2016)
Published in Viruses (19.02.2016)
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Journal Article
The koala retrovirus: lessons learned from the koala genome. In Proceedings of the Second Koala Retrovirus Workshop, ed. D. E. Alquezar-Planas, D. P. Higgins, C. L. Singleton, and A. D. Greenwood
Alquezar-Planas, David E.
Published in Technical Reports of the Australian Museum online (21.06.2023)
Published in Technical Reports of the Australian Museum online (21.06.2023)
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