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CoproID predicts the source of coprolites and paleofeces using microbiome composition and host DNA content

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dc.contributor.authorBorry, Maxime
dc.contributor.authorCordova, Bryan
dc.contributor.authorPerri, Angela
dc.contributor.authorWibowo, Marsha C.
dc.contributor.authorHonap, Tanvi Prasad
dc.contributor.authorKo, Jada
dc.contributor.authorYu, Jie
dc.contributor.authorBritton, Kate
dc.contributor.authorGirdland Flink, Linus
dc.contributor.authorPower, Robert C.
dc.contributor.authorStuijts, Ingelise
dc.contributor.authorGarcia, Domingo Salazar
dc.contributor.authorHofman, Courtney A.
dc.contributor.authorHagan, Richard W.
dc.contributor.authorKagone, Therese Samdapawinde
dc.contributor.authorMeda, Nicolas
dc.contributor.authorCarabin, Helene
dc.contributor.authorJacobson, David
dc.contributor.authorReinhard, Karl
dc.contributor.authorLewis, Jr., Cecil M.
dc.contributor.authorKostic, Aleksandar
dc.contributor.authorJeong, Choongwon
dc.contributor.authorHerbig, Alexander
dc.contributor.authorHubner, Alexander
dc.contributor.authorWarinner, Christina
dc.contributor.institutionUniversity of Aberdeen.Archaeologyen
dc.date.accessioned2020-04-21T08:35:01Z
dc.date.available2020-04-21T08:35:01Z
dc.date.issued2020-04-17
dc.descriptionFunding This work was supported by the US National Institutes of Health R01GM089886 (to Christina Warinner and Cecil Lewis), the Deutsche Forschungsgemeinschaft EXC 2051 #390713860 (to Christina Warinner), and the Max Planck Society. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript. Acknowledgements We thank David Petts, Zdeněk Tvrdý, Susanne Stegmann-Rajtár, and Zuzana Rajtarova for contributing archaeological samples to this study. We thank the Guildford Museum (Guildford Borough Council Heritage Service) and Catriona Wilson for allowing us to analyze the chamber pot paleofeces sample from Surrey, UK. The sample from Derragh, Ireland was excavated by Discovery Programme, an all-Ireland public center of archaeological research supported by the Heritage Council, during field work in 2003–2005 as part of the Lake Settlement Project. Thanks to the Servei d’Investigació Prehistòrica of València and Museu de la Valltorta of Catelló for access to material. Data Availability The following information was supplied regarding data availability: The code for the analysis is available at GitHub: https://github.com/maxibor/coproid-article and Zenodo: Maxime Borry, Alexander Peltzer, & James A. Fellows Yates. (2019, April 29). nf-core/coproid: coproID v1.0 - Dioptre Walrus (Version 1.0). Zenodo. DOI 10.5281/zenodo.2653757.en
dc.description.statusPeer revieweden
dc.format.extent23
dc.format.extent8414832
dc.identifier161552964
dc.identifiercb533719-9621-4771-b79b-abf499c41e8e
dc.identifier32337106
dc.identifier85085177100
dc.identifier.citationBorry, M, Cordova, B, Perri, A, Wibowo, M C, Honap, T P, Ko, J, Yu, J, Britton, K, Girdland Flink, L, Power, R C, Stuijts, I, Garcia, D S, Hofman, C A, Hagan, R W, Kagone, T S, Meda, N, Carabin, H, Jacobson, D, Reinhard, K, Lewis, Jr., C M, Kostic, A, Jeong, C, Herbig, A, Hubner, A & Warinner, C 2020, 'CoproID predicts the source of coprolites and paleofeces using microbiome composition and host DNA content', PeerJ, vol. 8, e9001. https://doi.org/10.1101/871533, https://doi.org/10.7717/peerj.9001, https://doi.org/10.7717/peerj.9001/supp-1en
dc.identifier.doi10.1101/871533
dc.identifier.issn2167-8359
dc.identifier.urihttps://hdl.handle.net/2164/14124
dc.identifier.urlhttp://www.scopus.com/inward/record.url?scp=85085177100&partnerID=8YFLogxKen
dc.identifier.vol8en
dc.language.isoeng
dc.relation.ispartofPeerJen
dc.subjectCoproliteen
dc.subjectPaleofecesen
dc.subjectMicrobiomeen
dc.subjectEndogenous DNAen
dc.subjectArchaeologyen
dc.subjectMachine learningen
dc.subjectNextflowen
dc.subjectGuten
dc.subjectHumanen
dc.subjectDogen
dc.subjectCC Archaeologyen
dc.subjectSupplementary Dataen
dc.subject.lccCCen
dc.titleCoproID predicts the source of coprolites and paleofeces using microbiome composition and host DNA contenten
dc.typeJournal articleen

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