Microbial differences between dental plaque and historic dental calculus are related to oral biofilm maturation stage
Velsko, Irina M, Fellows Yates, James A, Aron, Franziska, Hagan, Richard W, Frantz, Laurent A F, Loe, Louise, Martinez, Juan Bautista Rodriguez, Chaves, Eros, Gosden, Chris, Larson, Greger, Warinner, Christina
Published in Microbiome (06.07.2019)
Published in Microbiome (06.07.2019)
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Journal Article
Differential preservation of endogenous human and microbial DNA in dental calculus and dentin
Mann, Allison E, Sabin, Susanna, Ziesemer, Kirsten, Vågene, Åshild J, Schroeder, Hannes, Ozga, Andrew T, Sankaranarayanan, Krithivasan, Hofman, Courtney A, Fellows Yates, James A, Salazar-García, Domingo C, Frohlich, Bruno, Aldenderfer, Mark, Hoogland, Menno, Read, Christopher, Milner, George R, Stone, Anne C, Lewis, Jr, Cecil M, Krause, Johannes, Hofman, Corinne, Bos, Kirsten I, Warinner, Christina
Published in Scientific reports (29.06.2018)
Published in Scientific reports (29.06.2018)
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Journal Article
Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager
Fellows Yates, James A, Lamnidis, Thiseas C, Borry, Maxime, Andrades Valtueña, Aida, Fagernäs, Zandra, Clayton, Stephen, Garcia, Maxime U, Neukamm, Judith, Peltzer, Alexander
Published in PeerJ (San Francisco, CA) (16.03.2021)
Published in PeerJ (San Francisco, CA) (16.03.2021)
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Journal Article
Community-curated and standardised metadata of published ancient metagenomic samples with AncientMetagenomeDir
Fellows Yates, James A, Andrades Valtueña, Aida, Vågene, Åshild J, Cribdon, Becky, Velsko, Irina M, Borry, Maxime, Bravo-Lopez, Miriam J, Fernandez-Guerra, Antonio, Green, Eleanor J, Ramachandran, Shreya L, Heintzman, Peter D, Spyrou, Maria A, Hübner, Alexander, Gancz, Abigail S, Hider, Jessica, Allshouse, Aurora F, Zaro, Valentina, Warinner, Christina
Published in Scientific data (26.01.2021)
Published in Scientific data (26.01.2021)
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Journal Article
Ancient Metagenomic Studies: Considerations for the Wider Scientific Community
Der Sarkissian, Clio, Velsko, Irina M, Fotakis, Anna K, Vågene, Åshild J, Hübner, Alexander, Fellows Yates, James A
Published in mSystems (21.12.2021)
Published in mSystems (21.12.2021)
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Journal Article
A Robust Framework for Microbial Archaeology
Warinner, Christina, Herbig, Alexander, Mann, Allison, Fellows Yates, James A, Weiß, Clemens L, Burbano, Hernán A, Orlando, Ludovic, Krause, Johannes
Published in Annual review of genomics and human genetics (31.08.2017)
Published in Annual review of genomics and human genetics (31.08.2017)
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Journal Article
Natural products from reconstructed bacterial genomes of the Middle and Upper Paleolithic
Klapper, Martin, Hübner, Alexander, Ibrahim, Anan, Wasmuth, Ina, Borry, Maxime, Haensch, Veit G, Zhang, Shuaibing, Al-Jammal, Walid K, Suma, Harikumar, Fellows Yates, James A, Frangenberg, Jasmin, Velsko, Irina M, Chowdhury, Somak, Herbst, Rosa, Bratovanov, Evgeni V, Dahse, Hans-Martin, Horch, Therese, Hertweck, Christian, González Morales, Manuel Ramon, Straus, Lawrence Guy, Vilotijevic, Ivan, Warinner, Christina, Stallforth, Pierre
Published in Science (American Association for the Advancement of Science) (12.05.2023)
Published in Science (American Association for the Advancement of Science) (12.05.2023)
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Journal Article
Central European Woolly Mammoth Population Dynamics: Insights from Late Pleistocene Mitochondrial Genomes
Fellows Yates, James A, Drucker, Dorothée G, Reiter, Ella, Heumos, Simon, Welker, Frido, Münzel, Susanne C, Wojtal, Piotr, Lázničková-Galetová, Martina, Conard, Nicholas J, Herbig, Alexander, Bocherens, Hervé, Krause, Johannes
Published in Scientific reports (18.12.2017)
Published in Scientific reports (18.12.2017)
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Journal Article
Micro Methods for Megafauna: Novel Approaches to Late Quaternary Extinctions and Their Contributions to Faunal Conservation in the Anthropocene
SWIFT, JILLIAN A., BUNCE, MICHAEL, DORTCH, JOE, DOUGLASS, KRISTINA, FAITH, J. TYLER, YATES, JAMES A. FELLOWS, FIELD, JUDITH, HABERLE, SIMON G., JACOB, EILEEN, JOHNSON, CHRIS N., LINDSEY, EMILY, LORENZEN, ELINE D., LOUYS, JULIEN, MILLER, GIFFORD, MYCHAJLIW, ALEXIS M., SLON, VIVIANE, VILLAVICENCIO, NATALIA A., WATERS, MICHAEL R., WELKER, FRIDO, WOOD, RACHEL, PETRAGLIA, MICHAEL, BOIVIN, NICOLE, ROBERTS, PATRICK
Published in Bioscience (01.11.2019)
Published in Bioscience (01.11.2019)
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Journal Article
Facilitating accessible, rapid, and appropriate processing of ancient metagenomic data with AMDirT [version 2; peer review: 1 approved, 1 approved with reservations]
Borry, Maxime, Forsythe, Adrian, Andrades Valtueña, Aida, Hübner, Alexander, Ibrahim, Anan, Quagliariello, Andrea, White, Anna E., Kocher, Arthur, Vågene, Åshild J., Bartholdy, Bjørn Peare, Spurīte, Diāna, Ponce-Soto, Gabriel Yaxal, Neumann, Gunnar, Huang, I-Ting, Light, Ian, Velsko, Irina M., Jackson, Iseult, Frangenberg, Jasmin, Serrano, Javier G., Fumey, Julien, Özdoğan, Kadir T., Blevins, Kelly E., Daly, Kevin G., Lopopolo, Maria, Moraitou, Markella, Michel, Megan, van Os, Meriam, Bravo-Lopez, Miriam J., Sarhan, Mohamed S., Dagtas, Nihan D., Oskolkov, Nikolay, Smith, Olivia S., Lebrasseur, Ophélie, Rozwalak, Piotr, Eisenhofer, Raphael, Wasef, Sally, Ramachandran, Shreya L., Vanghi, Valentina, Warinner, Christina, Fellows Yates, James A.
Published in F1000 research (01.01.2023)
Published in F1000 research (01.01.2023)
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Journal Article
Do I have something in my teeth? The trouble with genetic analyses of diet from archaeological dental calculus
Mann, Allison E., Fellows Yates, James A., Fagernäs, Zandra, Austin, Rita M., Nelson, Elizabeth A., Hofman, Courtney A.
Published in Quaternary international (20.04.2023)
Published in Quaternary international (20.04.2023)
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Journal Article
Facilitating accessible, rapid, and appropriate processing of ancient metagenomic data with AMDirT [version 1; peer review: 1 approved, 1 approved with reservations]
Borry, Maxime, Forsythe, Adrian, Andrades Valtueña, Aida, Hübner, Alexander, Ibrahim, Anan, Quagliariello, Andrea, White, Anna E., Kocher, Arthur, Vågene, Åshild J., Bartholdy, Bjørn Peare, Spurīte, Diāna, Ponce-Soto, Gabriel Yaxal, Neumann, Gunnar, Huang, I-Ting, Light, Ian, Velsko, Irina M., Jackson, Iseult, Frangenberg, Jasmin, Serrano, Javier G., Fumey, Julien, Özdoğan, Kadir T., Blevins, Kelly E., Daly, Kevin G., Lopopolo, Maria, Moraitou, Markella, Michel, Megan, van Os, Meriam, Bravo-Lopez, Miriam J., Sarhan, Mohamed S., Dagtas, Nihan D., Oskolkov, Nikolay, Smith, Olivia S., Lebrasseur, Ophélie, Rozwalak, Piotr, Eisenhofer, Raphael, Wasef, Sally, Ramachandran, Shreya L., Vanghi, Valentina, Warinner, Christina, Fellows Yates, James A.
Published in F1000 research (2023)
Published in F1000 research (2023)
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Journal Article
TAXPASTA: TAXonomic Profile Aggregation and STAndardisation
Beber, Moritz E., Borry, Maxime, Stamouli, Sofia, Yates, James A. Fellows
Published in Journal of open source software (11.07.2023)
Published in Journal of open source software (11.07.2023)
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Journal Article
Do I have something in my teeth? The trouble with genetic analyses of diet from archaeological dental calculus
Mann, Allison E, Fellows Yates, James A, Fagernäs, Zandra, Austin, Rita M, Nelson, Elizabeth A, Hofman, Courtney A
Published in Quaternary international (2020)
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Published in Quaternary international (2020)
Journal Article
Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager
Fellows Yates, James A, Lamnidis, Thiseas C, Borry, Maxime, Valtueña, Aida Andrades, Fagernäs, Zandra, Clayton, Stephen, Garcia, Maxime U, Neukamm, Judith, Peltzer, Alexander
Published in bioRxiv (21.10.2020)
Published in bioRxiv (21.10.2020)
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Paper
Community-curated and standardised metadata of published ancient metagenomic samples with AncientMetagenomeDir
Fellows Yates, James A, Valtueña, Aida Andrades, Vågene, Ashild J, Cribdon, Becky, Velsko, Irina M, Borry, Maxime, Bravo-López, Miriam J, Fernandez-Guerra, Antonio, Green, Eleanor J, Ramachandran, Shreya L, Heintzman, Peter D, Spyrou, Maria A, Hübner, Alexander, Gancz, Abigail S, Hider, Jessica, Allshouse, Aurora F, Warinner, Christina
Published in bioRxiv (03.09.2020)
Published in bioRxiv (03.09.2020)
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Paper