Works by Llamas, Bastien

Results: 47

Sedimentary ancient DNA from caves: Challenges and opportunities.

Published in:

Journal of Quaternary Science, 2025, v. 40, n. 4, p. 565, doi. 10.1002/jqs.3712

By:

Evans, Siobhan;
Llamas, Bastien;
Wood, Jamie R.

Publication type:

Article

Cases of trisomy 21 and trisomy 18 among historic and prehistoric individuals discovered from ancient DNA.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-45438-1

By:

Rohrlach, Adam Benjamin;
Rivollat, Maïté;
de-Miguel-Ibáñez, Patxuka;
Moilanen, Ulla;
Liira, Anne-Mari;
Teixeira, João C.;
Roca-Rada, Xavier;
Armendáriz-Martija, Javier;
Boyadzhiev, Kamen;
Boyadzhiev, Yavor;
Llamas, Bastien;
Tiliakou, Anthi;
Mötsch, Angela;
Tuke, Jonathan;
Prevedorou, Eleni-Anna;
Polychronakou-Sgouritsa, Naya;
Buikstra, Jane;
Onkamo, Päivi;
Stockhammer, Philipp W.;
Heyne, Henrike O.

Publication type:

Article

Shrouded in history: Unveiling the ways of life of an early Muslim population in Santarém, Portugal (8<sup>th</sup>– 10<sup>th</sup> century AD).

Published in:

PLoS ONE, 2024, v. 19, n. 3, p. 1, doi. 10.1371/journal.pone.0299958

By:

MacRoberts, Rebecca Anne;
Liberato, Marco;
Roca-Rada, Xavier;
Valente, Maria João;
Relvado, Claudia;
Matos Fernandes, Teresa;
Barrocas Dias, Cristina;
Llamas, Bastien;
Vasconcelos Vilar, Hermínia;
Schöne, Bernd R.;
Ribeiro, Sara;
Santos, José Francisco;
Teixeira, João C.;
Maurer, Anne-France

Publication type:

Article

EL ADN ANTIGUO Y LA HISTORIA DEL POBLAMIENTO TEMPRANO DEL OESTE DE SUDAMÉRICA: LO QUE HEMOS APRENDIDO Y HACIA DÓNDE VAMOS.

Published in:

Boletín de Arqueología PUCP, 2011, n. 15, p. 17, doi. 10.18800/boletindearqueologiapucp.201101.002

By:

Fehren-Schmitz, Lars;
Llamas, Bastien;
Tomasto, Elsa;
Haak, Wolfgang

Publication type:

Article

An extinct nestorid parrot ( Aves, Psittaciformes, Nestoridae) from the Chatham Islands, New Zealand.

Published in:

Zoological Journal of the Linnean Society, 2014, v. 172, n. 1, p. 185, doi. 10.1111/zoj.12164

By:

Wood, Jamie R.;
Mitchell, Kieren J.;
Scofield, R. Paul;
Tennyson, Alan. J. D.;
Fidler, Andrew E.;
Wilmshurst, Janet M.;
Llamas, Bastien;
Cooper, Alan

Publication type:

Article

DNA capture and next-generation sequencing can recover whole mitochondrial genomes from highly degraded samples for human identification.

Published in:

Investigative Genetics, 2013, v. 4, n. 1, p. 2, doi. 10.1186/2041-2223-4-26

By:

Templeton, Jennifer EL.;
Brotherton, Paul M.;
Llamas, Bastien;
Soubrier, Julien;
Haak, Wolfgang;
Cooper, Alan;
Austin, Jeremy J.

Publication type:

Article

Environmental conditions associated with initial northern expansion of anatomically modern humans.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-48762-8

By:

Saltré, Frédérik;
Chadœuf, Joël;
Higham, Thomas;
Ochocki, Monty;
Block, Sebastián;
Bunney, Ellyse;
Llamas, Bastien;
Bradshaw, Corey J. A.

Publication type:

Article

Ancient DNA Analysis Suggests Negligible Impact of the Wari Empire Expansion in Peru’s Central Coast during the Middle Horizon.

Published in:

PLoS ONE, 2016, v. 11, n. 6, p. 1, doi. 10.1371/journal.pone.0155508

By:

Valverde, Guido;
Barreto Romero, María Inés;
Flores Espinoza, Isabel;
Cooper, Alan;
Fehren-Schmitz, Lars;
Llamas, Bastien;
Haak, Wolfgang

Publication type:

Article

Ancient DNA Reconstructs the Genetic Legacies of Precontact Puerto Rico Communities.

Published in:

Molecular Biology & Evolution, 2020, v. 37, n. 3, p. 611, doi. 10.1093/molbev/msz267

By:

Nieves-Colón, Maria A;
Pestle, William J;
Reynolds, Austin W;
Llamas, Bastien;
de la Fuente, Constanza;
Fowler, Kathleen;
Skerry, Katherine M;
Crespo-Torres, Edwin;
Bustamante, Carlos D;
Stone, Anne C

Publication type:

Article

More Arrows in the Ancient DNA Quiver: Use of Paleoepigenomes and Paleomicrobiomes to Investigate Animal Adaptation to Environment.

Published in:

Molecular Biology & Evolution, 2020, v. 37, n. 2, p. 307, doi. 10.1093/molbev/msz231

By:

Liu, Yichen;
Weyrich, Laura S;
Llamas, Bastien

Publication type:

Article

Late Pleistocene Australian Marsupial DNA Clarifies the Affinities of Extinct Megafaunal Kangaroos and Wallabies.

Published in:

Molecular Biology & Evolution, 2015, v. 32, n. 3, p. 574, doi. 10.1093/molbev/msu338

By:

Llamas, Bastien;
Brotherton, Paul;
Mitchell, Kieren J.;
Templeton, Jennifer E.L.;
Thomson, Vicki A.;
Metcalf, Jessica L.;
Armstrong, Kyle N.;
Kasper, Marta;
Richards, Stephen M.;
Camens, Aaron B.;
Lee, Michael S.Y.;
Cooper, Alan

Publication type:

Article

Molecular Phylogeny, Biogeography, and Habitat Preference Evolution of Marsupials.

Published in:

Molecular Biology & Evolution, 2014, v. 31, n. 9, p. 2322, doi. 10.1093/molbev/msu176

By:

Mitchell, Kieren J.;
Pratt, Renae C.;
Watson, Laura N.;
Gibb, Gillian C.;
Llamas, Bastien;
Kasper, Marta;
Edson, Janette;
Hopwood, Blair;
Male, Dean;
Armstrong, Kyle N.;
Meyer, Matthias;
Hofreiter, Michael;
Austin, Jeremy;
Donnellan, Stephen C.;
Lee, Michael S. Y.;
Phillips, Matthew J.;
Cooper, Alan

Publication type:

Article

Spatiotemporal landscape genetics: Investigating ecology and evolution through space and time.

Published in:

Molecular Ecology, 2020, v. 29, n. 2, p. 218, doi. 10.1111/mec.15315

By:

Fenderson, Lindsey E.;
Kovach, Adrienne I.;
Llamas, Bastien

Publication type:

Article

Pleistocene Chinese cave hyenas and the recent Eurasian history of the spotted hyena, Crocuta crocuta.

Published in:

Molecular Ecology, 2014, v. 23, n. 3, p. 522, doi. 10.1111/mec.12576

By:

Sheng, Gui‐Lian;
Soubrier, Julien;
Liu, Jin‐Yi;
Werdelin, Lars;
Llamas, Bastien;
Thomson, Vicki A.;
Tuke, Jonathan;
Wu, Lian‐Juan;
Hou, Xin‐Dong;
Chen, Quan‐Jia;
Lai, Xu‐Long;
Cooper, Alan

Publication type:

Article

Correction: Low-cost cross-taxon enrichment of mitochondrial DNA using in-house synthesised RNA probes.

Published in:

2019

By:

Richards, Stephen M.;
Hovhannisyan, Nelli;
Gilliham, Matthew;
Ingram, Joshua;
Skadhauge, Birgitte;
Heiniger, Holly;
Llamas, Bastien;
Mitchell, Kieren J.;
Meachen, Julie;
Fincher, Geoffrey B.;
Austin, Jeremy J.;
Cooper, Alan

Publication type:

Correction Notice

Low-cost cross-taxon enrichment of mitochondrial DNA using in-house synthesised RNA probes.

Published in:

PLoS ONE, 2019, v. 14, n. 2, p. 1, doi. 10.1371/journal.pone.0209499

By:

Richards, Stephen M.;
Hovhannisyan, Nelli;
Gilliham, Matthew;
Ingram, Joshua;
Skadhauge, Birgitte;
Heiniger, Holly;
Llamas, Bastien;
Mitchell, Kieren J.;
Meachen, Julie;
Fincher, Geoffrey B.;
Austin, Jeremy J.;
Cooper, Alan

Publication type:

Article

Massive migration from the steppe was a source for Indo-European languages in Europe.

Published in:

Nature, 2015, v. 522, n. 7555, p. 207, doi. 10.1038/nature14317

By:

Haak, Wolfgang;
Lazaridis, Iosif;
Patterson, Nick;
Rohland, Nadin;
Mallick, Swapan;
Llamas, Bastien;
Brandt, Guido;
Nordenfelt, Susanne;
Harney, Eadaoin;
Stewardson, Kristin;
Fu, Qiaomei;
Mittnik, Alissa;
Bánffy, Eszter;
Economou, Christos;
Francken, Michael;
Friederich, Susanne;
Pena, Rafael Garrido;
Hallgren, Fredrik;
Khartanovich, Valery;
Khokhlov, Aleksandr

Publication type:

Article

More than dirt: Sedimentary ancient DNA and Indigenous Australia.

Published in:

Molecular Ecology Resources, 2025, v. 25, n. 2, p. 1, doi. 10.1111/1755-0998.13835

By:

Lewis, Dawn A.;
Simpson, Rebecca;
Hermes, Azure;
Brown, Alex;
Llamas, Bastien

Publication type:

Article

Allelic bias when performing in‐solution enrichment of ancient human DNA.

Published in:

Molecular Ecology Resources, 2023, v. 23, n. 8, p. 1823, doi. 10.1111/1755-0998.13869

By:

Davidson, Roberta;
Williams, Matthew P.;
Roca‐Rada, Xavier;
Kassadjikova, Kalina;
Tobler, Raymond;
Fehren‐Schmitz, Lars;
Llamas, Bastien

Publication type:

Article

Experimental conditions improving in-solution target enrichment for ancient DNA.

Published in:

Molecular Ecology Resources, 2017, v. 17, n. 3, p. 508, doi. 10.1111/1755-0998.12595

By:

Cruz‐Dávalos, Diana I.;
Llamas, Bastien;
Gaunitz, Charleen;
Fages, Antoine;
Gamba, Cristina;
Soubrier, Julien;
Librado, Pablo;
Seguin‐Orlando, Andaine;
Pruvost, Mélanie;
Alfarhan, Ahmed H.;
Alquraishi, Saleh A.;
Al‐Rasheid, Khaled A. S.;
Scheu, Amelie;
Beneke, Norbert;
Ludwig, Arne;
Cooper, Alan;
Willerslev, Eske;
Orlando, Ludovic

Publication type:

Article

Binding affinities of 438 HLA proteins to complete proteomes of seven pandemic viruses and distributions of strongest and weakest HLA peptide binders in populations worldwide.

Published in:

HLA: Immune Response Genetics, 2020, v. 96, n. 3, p. 277, doi. 10.1111/tan.13956

By:

Barquera, Rodrigo;
Collen, Evelyn;
Di, Da;
Buhler, Stéphane;
Teixeira, João;
Llamas, Bastien;
Nunes, José M.;
Sanchez‐Mazas, Alicia

Publication type:

Article

Ancient DNA from an extinct Mediterranean micromammal—Hypnomys morpheus (Rodentia: Gliridae)—Provides insight into the biogeographic history of insular dormice.

Published in:

Journal of Zoological Systematics & Evolutionary Research, 2020, v. 58, n. 1, p. 427, doi. 10.1111/jzs.12343

By:

Bover, Pere;
Mitchell, Kieren J.;
Torres‐Roig, Enric;
Llamas, Bastien;
Thomson, Vicki A.;
Alcover, Josep Antoni;
Agustí, Jordi;
Cooper, Alan;
Pons, Joan

Publication type:

Article

Genozip: a universal extensible genomic data compressor.

Published in:

Bioinformatics, 2021, v. 37, n. 16, p. 2225, doi. 10.1093/bioinformatics/btab102

By:

Lan, Divon;
Tobler, Ray;
Souilmi, Yassine;
Llamas, Bastien

Publication type:

Article

genozip: a fast and efficient compression tool for VCF files.

Published in:

Bioinformatics, 2020, v. 36, n. 13, p. 4091, doi. 10.1093/bioinformatics/btaa290

By:

Lan, Divon;
Tobler, Raymond;
Souilmi, Yassine;
Llamas, Bastien

Publication type:

Article

Early cave art and ancient DNA record the origin of European bison.

Published in:

Nature Communications, 2016, v. 7, n. 10, p. 13158, doi. 10.1038/ncomms13158

By:

Soubrier, Julien;
Gower, Graham;
Chen, Kefei;
Richards, Stephen M.;
Llamas, Bastien;
Mitchell, Kieren J.;
Ho, Simon Y. W.;
Kosintsev, Pavel;
Lee, Michael S. Y.;
Baryshnikov, Gennady;
Bollongino, Ruth;
Bover, Pere;
Burger, Joachim;
Chivall, David;
Crégut-Bonnoure, Evelyne;
Decker, Jared E.;
Doronichev, Vladimir B.;
Douka, Katerina;
Fordham, Damien A.;
Fontana, Federica

Publication type:

Article

Iron Age and Anglo-Saxon genomes from East England reveal British migration history.

Published in:

Nature Communications, 2016, v. 7, n. 1, p. 10408, doi. 10.1038/ncomms10408

By:

Schiffels, Stephan;
Haak, Wolfgang;
Paajanen, Pirita;
Llamas, Bastien;
Popescu, Elizabeth;
Loe, Louise;
Clarke, Rachel;
Lyons, Alice;
Mortimer, Richard;
Sayer, Duncan;
Tyler-Smith, Chris;
Cooper, Alan;
Durbin, Richard

Publication type:

Article

Individuals with Inflammatory Bowel Disease Have an Altered Gut Microbiome Composition of Fungi and Protozoa.

Published in:

Microorganisms, 2022, v. 10, n. 10, p. 1910, doi. 10.3390/microorganisms10101910

By:

Guzzo, Gina L.;
Mittinty, Murthy N.;
Llamas, Bastien;
Andrews, Jane M.;
Weyrich, Laura S.

Publication type:

Article

A Re-Appraisal of the Early Andean Human Remains from Lauricocha in Peru.

Published in:

PLoS ONE, 2015, v. 10, n. 6, p. 1, doi. 10.1371/journal.pone.0127141

By:

Fehren-Schmitz, Lars;
Llamas, Bastien;
Lindauer, Susanne;
Tomasto-Cagigao, Elsa;
Kuzminsky, Susan;
Rohland, Nadin;
Santos, Fabrício R.;
Kaulicke, Peter;
Valverde, Guido;
Richards, Stephen M.;
Nordenfelt, Susanne;
Seidenberg, Verena;
Mallick, Swapan;
Cooper, Alan;
Reich, David;
Haak, Wolfgang

Publication type:

Article

AmericaPlex26: A SNaPshot Multiplex System for Genotyping the Main Human Mitochondrial Founder Lineages of the Americas.

Published in:

PLoS ONE, 2014, v. 9, n. 3, p. 1, doi. 10.1371/journal.pone.0093292

By:

Coutinho, Alexandra;
Valverde, Guido;
Fehren-Schmitz, Lars;
Cooper, Alan;
Barreto Romero, Maria Inés;
Espinoza, Isabel Flores;
Llamas, Bastien;
Haak, Wolfgang

Publication type:

Article

Mitochondrial Genome Sequencing in Mesolithic North East Europe Unearths a New Sub-Clade within the Broadly Distributed Human Haplogroup C1.

Published in:

PLoS ONE, 2014, v. 9, n. 2, p. 1, doi. 10.1371/journal.pone.0087612

By:

Der Sarkissian, Clio;
Brotherton, Paul;
Balanovsky, Oleg;
Templeton, Jennifer E. L.;
Llamas, Bastien;
Soubrier, Julien;
Moiseyev, Vyacheslav;
Khartanovich, Valery;
Cooper, Alan;
Haak, Wolfgang

Publication type:

Article

High-Resolution Analysis of Cytosine Methylation in Ancient DNA.

Published in:

PLoS ONE, 2012, v. 7, n. 1, p. 1, doi. 10.1371/journal.pone.0030226

By:

Llamas, Bastien;
Holland, Michelle L.;
Chen, Kefei;
Cropley, Jennifer E.;
Cooper, Alan;
Suter, Catherine M.

Publication type:

Article

Ethnic and Mouse Strain Differences in Central Corneal Thickness and Association with Pigmentation Phenotype.

Published in:

PLoS ONE, 2011, v. 6, n. 8, p. 1, doi. 10.1371/journal.pone.0022103

By:

Dimasi, David P.;
Hewitt, Alex W.;
Kagame, Kenneth;
Ruvama, Sam;
Tindyebwa, Ludovica;
Llamas, Bastien;
Kirk, Kirsty A.;
Mitchell, Paul;
Burdon, Kathryn P.;
Craig, Jamie E.

Publication type:

Article

The immunogenetic impact of European colonization in the Americas.

Published in:

Frontiers in Genetics, 2022, v. 13, p. 1, doi. 10.3389/fgene.2022.918227

By:

Collen, Evelyn Jane;
Johar, Angad Singh;
Teixeira, João C.;
Llamas, Bastien

Publication type:

Article

Mitogenomes Reveal Two Major Influxes of Papuan Ancestry across Wallacea Following the Last Glacial Maximum and Austronesian Contact.

Published in:

Genes, 2021, v. 12, n. 7, p. 965, doi. 10.3390/genes12070965

By:

Purnomo, Gludhug A.;
Mitchell, Kieren J.;
O'Connor, Sue;
Kealy, Shimona;
Taufik, Leonard;
Schiller, Sophie;
Rohrlach, Adam;
Cooper, Alan;
Llamas, Bastien;
Sudoyo, Herawati;
Teixeira, João C.;
Tobler, Raymond

Publication type:

Article

A Multidisciplinary Review of the Inka Imperial Resettlement Policy and Implications for Future Investigations.

Published in:

Genes, 2021, v. 12, n. 2, p. 215, doi. 10.3390/genes12020215

By:

Davidson, Roberta;
Fehren-Schmitz, Lars;
Llamas, Bastien;
Semino, Ornella

Publication type:

Article

Ancient DNA Studies in Pre-Columbian Mesoamerica.

Published in:

Genes, 2020, v. 11, n. 11, p. 1346, doi. 10.3390/genes11111346

By:

Roca-Rada, Xavier;
Souilmi, Yassine;
Teixeira, João C.;
Llamas, Bastien

Publication type:

Article

Chromosome Y variants from different inbred mouse strains are linked to differences in the morphologic and molecular responses of cardiac cells to postpubertal testosterone.

Published in:

BMC Genomics, 2009, v. 10, p. 1, doi. 10.1186/1471-2164-10-150

By:

Llamas, Bastien;
Verdugo, Ricardo A.;
Churchill, Gary A.;
Deschepper, Christian F.

Publication type:

Article

Ancient DNA of northern China Hystricidae sub-fossils reveals the evolutionary history of old world porcupines in the Late Pleistocene.

Published in:

BMC Evolutionary Biology, 2020, v. 20, n. 1, p. 1, doi. 10.1186/s12862-020-01656-x

By:

Sheng, Guilian;
Hu, Jiaming;
Tong, Haowen;
Llamas, Bastien;
Yuan, Junxia;
Hou, Xindong;
Chen, Shungang;
Xiao, Bo;
Lai, Xulong

Publication type:

Article

Distinct QTLs are linked to cardiac left ventricular mass in a sex-specific manner in a normotensive inbred rat intercross.

Published in:

Mammalian Genome, 2005, v. 16, n. 9, p. 700, doi. 10.1007/s00335-005-0041-z

By:

Llamas, Bastien;
Zhibin Jiang;
Rainville, Marie-Line;
Picard, Sylvie;
Deschepper, Christian F.

Publication type:

Article

QTL mapping for traits associated with stress neuroendocrine reactivity in rats.

Published in:

Mammalian Genome, 2005, v. 16, n. 7, p. 505, doi. 10.1007/s00335-005-0022-2

By:

Llamas, Bastien;
Contesse, Vincent;
Guyonnet-Duperat, V&éronique;
Vaudry, Hubert;
Morm&ède, Pierre;
Moisan, Marie-Pierre

Publication type:

Article

From the field to the laboratory: Controlling DNA contamination in human ancient DNA research in the high-throughput sequencing era.

Published in:

Science & Technology of Archaeological Research, 2017, v. 3, n. 1, p. 1, doi. 10.1080/20548923.2016.1258824

By:

Llamas, Bastien;
Valverde, Guido;
Fehren-Schmitz, Lars;
Weyrich, Laura S;
Cooper, Alan;
Haak, Wolfgang

Publication type:

Article

Filtering out the noise: metagenomic classifiers optimize ancient DNA mapping.

Published in:

Briefings in Bioinformatics, 2025, v. 26, n. 1, p. 1, doi. 10.1093/bib/bbae646

By:

Ravishankar, Shyamsundar;
Perez, Vilma;
Davidson, Roberta;
Roca-Rada, Xavier;
Lan, Divon;
Souilmi, Yassine;
Llamas, Bastien

Publication type:

Article

Systematic benchmark of ancient DNA read mapping.

Published in:

Briefings in Bioinformatics, 2021, v. 22, n. 5, p. 1, doi. 10.1093/bib/bbab076

By:

Oliva, Adrien;
Tobler, Raymond;
Cooper, Alan;
Llamas, Bastien;
Souilmi, Yassine

Publication type:

Article

Additional evaluations show that specific BWA‐aln settings still outperform BWA‐mem for ancient DNA data alignment.

Published in:

Ecology & Evolution (20457758), 2021, v. 11, n. 24, p. 18743, doi. 10.1002/ece3.8297

By:

Oliva, Adrien;
Tobler, Raymond;
Llamas, Bastien;
Souilmi, Yassine

Publication type:

Article

Stochastic models support rapid peopling of Late Pleistocene Sahul.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-21551-3

By:

Bradshaw, Corey J. A.;
Norman, Kasih;
Ulm, Sean;
Williams, Alan N.;
Clarkson, Chris;
Chadœuf, Joël;
Lin, Sam C.;
Jacobs, Zenobia;
Roberts, Richard G.;
Bird, Michael I.;
Weyrich, Laura S.;
Haberle, Simon G.;
O'Connor, Sue;
Llamas, Bastien;
Cohen, Tim J.;
Friedrich, Tobias;
Veth, Peter;
Leavesley, Matthew;
Saltré, Frédérik

Publication type:

Article

Exploring the Potential of Genome-Wide Hybridization Capture Enrichment for Forensic DNA Profiling of Degraded Bones.

Published in:

Genes, 2025, v. 16, n. 1, p. 23, doi. 10.3390/genes16010023

By:

Haarkötter, Christian;
Roca-Rada, Xavier;
Saiz, María;
Vinueza-Espinosa, Diana C.;
Gálvez, Xiomara;
Medina-Lozano, María Isabel;
Díaz-Ruiz, Daniel;
Álvarez, Juan Carlos;
Llamas, Bastien;
Lorente, Jose Antonio;
Austin, Jeremy

Publication type:

Article

Human Genetic Research in Wallacea and Sahul: Recent Findings and Future Prospects.

Published in:

Genes, 2022, v. 13, n. 12, p. 2373, doi. 10.3390/genes13122373

By:

Taufik, Leonard;
Teixeira, João C.;
Llamas, Bastien;
Sudoyo, Herawati;
Tobler, Raymond;
Purnomo, Gludhug A.

Publication type:

Article