Zobrazeno 1 - 10
of 19
pro vyhledávání: '"Bianca de Sanctis"'
Publikováno v:
mSphere, Vol 9, Iss 7 (2024)
ABSTRACT Gene knockout studies suggest that ~300 genes in a bacterial genome and ~1,100 genes in a yeast genome cannot be deleted without loss of viability. These single-gene knockout experiments do not account for negative genetic interactions, when
Externí odkaz:
https://doaj.org/article/a8a098a726314da48800b11696ffea46
Publikováno v:
Wellcome Open Research, Vol 8 (2023)
Sequences derived from circular DNA molecules (i.e. most bacterial, viral and plastid genomes) are expected to be linearised and rotated to a common start position for most downstream analyses including alignment. Despite this being a common and stra
Externí odkaz:
https://doaj.org/article/511b9ae8c04e4c0485b07905f739cf83
Publikováno v:
Peer Community Journal. 3
When divergent populations interbreed, the outcome will be affected by the genomic and phenotypic differences that they have accumulated. In this way, the mode of evolutionary divergence between populations may have predictable consequences for the f
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7b78f83569215e27018c8cd2aed27768
https://doi.org/10.24072/pcjournal.226
https://doi.org/10.24072/pcjournal.226
Autor:
Yucheng Wang, Ana Prohaska, Haoran Dong, Adriana Alberti, Inger Greve Alsos, David W. Beilman, Anders A. Bjørk, Jialu Cao, Anna A. Cherezova, Eric Coissac, Bianca De Sanctis, France Denoeud, Christoph Dockter, Richard Durbin, Mary E. Edwards, Neil R. Edwards, Julie Esdale, Grigory B. Fedorov, Antonio Fernandez-Guerra, Duane G. Froese, Galina Gusarova, James Haile, Philip B. Holden, Kristian K. Kjeldsen, Kurt H. Kjær, Thorfinn Sand Korneliussen, Youri Lammers, Nicolaj Krog Larsen, Ruairidh Macleod, Jan Mangerud, Hugh McColl, Marie Kristine Føreid Merkel, Daniel Money, Per Möller, David Nogués-Bravo, Ludovic Orlando, Hannah Lois Owens, Mikkel Winther Pedersen, Fernando Racimo, Carsten Rahbek, Jeffrey T. Rasic, Alexandra Rouillard, Anthony H. Ruter, Birgitte Skadhauge, John Inge Svendsen, Alexei Tikhonov, Lasse Vinner, Patrick Wincker, Yingchun Xing, Yubin Zhang, David J. Meltzer, Eske Willerslev
Publikováno v:
Wang, Y, Prohaska, A, Dong, H, Alberti, A, Alsos, I G, Beilman, D W, Bjørk, A A, Cao, J, Cherezova, A A, Coissac, E, De Sanctis, B, Denoeud, F, Dockter, C, Durbin, R, Edwards, M E, Edwards, N R, Esdale, J, Fedorov, G B, Fernandez-Guerra, A, Froese, D G, Gusarova, G, Haile, J, Holden, P B, Kjeldsen, K K, Kjær, K H, Korneliussen, T S, Lammers, Y, Larsen, N K, Macleod, R, Mangerud, J, McColl, H, Merkel, M K F, Money, D, Möller, P, Nogués-Bravo, D, Orlando, L, Owens, H L, Pedersen, M W, Racimo, F, Rahbek, C, Rasic, J T, Rouillard, A, Ruter, A H, Skadhauge, B, Svendsen, J I, Tikhonov, A, Vinner, L, Wincker, P, Xing, Y, Zhang, Y, Meltzer, D J & Willerslev, E 2022, ' Reply to: When did mammoths go extinct? ', Nature, vol. 612, no. 7938, pp. E4-E6 . https://doi.org/10.1038/s41586-022-05417-2
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5e4532aa4008f8c8f8a8afb14ef1273b
https://pubmed.ncbi.nlm.nih.gov/36450914
https://pubmed.ncbi.nlm.nih.gov/36450914
Publikováno v:
De Sanctis, B, Money, D, Pedersen, M W & Durbin, R 2022, ' A theoretical analysis of taxonomic binning accuracy ', Molecular Ecology Resources, vol. 22, no. 6, pp. 2208-2219 . https://doi.org/10.1111/1755-0998.13608
Many metagenomic and environmental DNA studies require the taxonomic assignment of individual reads or sequences by aligning reads to a reference database, known as taxonomic binning. When a read aligns to more than one reference sequence, it is ofte
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::14e71d297d58b81e992ffb1190d76e52
Funder: Wellcome Trust
Joint phylogenetic analysis of ancient DNA (aDNA) with modern phylogenies is hampered by low sequence coverage and post-mortem deamination, often resulting in over-conservative or incorrect assignment. We provide a new eff
Joint phylogenetic analysis of ancient DNA (aDNA) with modern phylogenies is hampered by low sequence coverage and post-mortem deamination, often resulting in over-conservative or incorrect assignment. We provide a new eff
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9555baad78a9510c81e1884e43f38bf9
Y-chromosome dataset of worldwide populations for ancient DNA sample placement published as part of the paper: "Placing ancient DNA sequences into reference phylogenies".
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::83c7c37367036c19125367e459df0102
Autor:
Inger Greve Alsos, David Bravo Nogues, Adriana Alberti, Jialu Cao, Youri Lammers, Thorfinn Sand Korneliussen, Yubin Zhang, Alexandra Rouillard, Eske Willerslev, Antonio Fernandez-Guerra, John Inge Svendsen, Jeffrey T. Rasic, David W. Beilman, Patrick Wincker, Per Möller, Fernando Racimo, Christoph Dockter, Alexei Tikhonov, Marie Kristine Føreid Merkel, Anna Cherezova, Julie Esdale, Lasse Vinner, Daniel Money, Duane G. Froese, Bianca De Sanctis, Anthony Ruter, Hannah L. Owens, Hugh McColl, Richard Durbin, Galina Gusarova, David J. Meltzer, Neil R. Edwards, James Haile, Nicolaj K. Larsen, Yingchun Xing, Kurt H. Kjær, Jan Mangerud, Mary E. Edwards, Kristian K. Kjeldsen, Mikkel Winther Pedersen, Birgitte Skadhauge, Carsten Rahbek, Grigory Fedorov, Eric Coissac, Ludovic Orlando, Anders A. Bjørk, Y. L. Wang, Philip B. Holden, Ana Prohaska
Publikováno v:
Nature
Nature, Nature Publishing Group, 2021, 598 (7882), pp.634-640. ⟨10.1038/s41586-021-04016-x⟩
Wang, Y, Pedersen, M W, Alsos, I G, De Sanctis, B, Racimo, F, Prohaska, A, Coissac, E, Owens, H L, Merkel, M K F, Fernandez-Guerra, A, Rouillard, A, Lammers, Y, Alberti, A, Denoeud, F, Money, D, Ruter, A H, McColl, H, Larsen, N K, Cherezova, A A, Edwards, M E, Fedorov, G B, Haile, J, Orlando, L, Vinner, L, Korneliussen, T S, Beilman, D W, Bjørk, A A, Cao, J, Dockter, C, Esdale, J, Gusarova, G, Kjeldsen, K K, Mangerud, J, Rasic, J T, Skadhauge, B, Svendsen, J I, Tikhonov, A, Wincker, P, Xing, Y, Zhang, Y, Froese, D G, Rahbek, C, Nogues, D B, Holden, P B, Edwards, N R, Durbin, R, Meltzer, D J, Kjær, K H, Möller, P & Willerslev, E 2021, ' Late Quaternary dynamics of Arctic biota from ancient environmental genomics ', Nature . https://doi.org/10.1038/s41586-021-04016-x
Nature, 2021, 598 (7882), pp.634-640. ⟨10.1038/s41586-021-04016-x⟩
Nature, Nature Publishing Group, 2021, 598 (7882), pp.634-640. ⟨10.1038/s41586-021-04016-x⟩
Wang, Y, Pedersen, M W, Alsos, I G, De Sanctis, B, Racimo, F, Prohaska, A, Coissac, E, Owens, H L, Merkel, M K F, Fernandez-Guerra, A, Rouillard, A, Lammers, Y, Alberti, A, Denoeud, F, Money, D, Ruter, A H, McColl, H, Larsen, N K, Cherezova, A A, Edwards, M E, Fedorov, G B, Haile, J, Orlando, L, Vinner, L, Korneliussen, T S, Beilman, D W, Bjørk, A A, Cao, J, Dockter, C, Esdale, J, Gusarova, G, Kjeldsen, K K, Mangerud, J, Rasic, J T, Skadhauge, B, Svendsen, J I, Tikhonov, A, Wincker, P, Xing, Y, Zhang, Y, Froese, D G, Rahbek, C, Nogues, D B, Holden, P B, Edwards, N R, Durbin, R, Meltzer, D J, Kjær, K H, Möller, P & Willerslev, E 2021, ' Late Quaternary dynamics of Arctic biota from ancient environmental genomics ', Nature . https://doi.org/10.1038/s41586-021-04016-x
Nature, 2021, 598 (7882), pp.634-640. ⟨10.1038/s41586-021-04016-x⟩
Acknowledgements: Acknowledgements: We thank D. H. Mann for his detailed and constructive comments; and T. Ager, J. Austin, T. B. Brand, A. Cooper, S. Funder, M. T. P. Gilbert, T. Jørgensen, N. J. Korsgaard, S. Liu, M. Meldgaard, P. V. S. Olsen, M.
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::2467087f8d377a71f0ada76ad45f01c7
https://hdl.handle.net/10037/23026
https://hdl.handle.net/10037/23026
Autor:
Emily E. Puckett, Martin Sikora, James A. Cahill, Grant D. Zazula, Zhenquan Gu, Beth Shapiro, Richard Durbin, Mikkel Winther Pedersen, Joaquín Arroyo-Cabrales, Ciprian F. Ardelean, Joshua D. Kapp, Peter D. Heintzman, Zaruhi Vardanyan, Eske Willerslev, Lasse Vinner, Bianca De Sanctis, Ross D. E. MacPhee, Katherine L. Moon, Nedda F. Saremi
Publikováno v:
Pedersen, M W, De Sanctis, B, Saremi, N F, Sikora, M, Puckett, E E, Gu, Z, Moon, K L, Kapp, J D, Vinner, L, Vardanyan, Z, Ardelean, C F, Arroyo-Cabrales, J, Cahill, J A, Heintzman, P D, Zazula, G, MacPhee, R D E, Shapiro, B, Durbin, R & Willerslev, E 2021, ' Environmental genomics of Late Pleistocene black bears and giant short-faced bears ', Current Biology, vol. 31, no. 12, pp. 2728-2736.e8 . https://doi.org/10.1016/j.cub.2021.04.027
Analysis of ancient environmental DNA (eDNA) has revolutionized our ability to describe biological communities in space and time,1–3 by allowing for parallel sequencing of DNA from all trophic levels.4–8 However, because environmental samples con
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5397b309701ce4fa2dbdd69a4768a91e
https://curis.ku.dk/portal/da/publications/environmental-genomics-of-late-pleistocene-black-bears-and-giant-shortfaced-bears(ab7b7c66-a88e-4251-8380-a971e5beb6dc).html
https://curis.ku.dk/portal/da/publications/environmental-genomics-of-late-pleistocene-black-bears-and-giant-shortfaced-bears(ab7b7c66-a88e-4251-8380-a971e5beb6dc).html
During the last decade, large volumes of ancient DNA (aDNA) data have been generated as part of whole-genome shotgun and target capture sequencing studies. This includes sequences from non-recombining loci such as the mitochondrial or Y chromosomes.
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::3ed85826e67e1729ef0d767ee9ea55e4
https://doi.org/10.1101/2020.12.19.423614
https://doi.org/10.1101/2020.12.19.423614