Bastien Llamas

Publications

• Additional evaluations show that specific BWA‐aln settings still outperform BWA‐mem for ancient DNA data alignment
• Ancient DNA of northern China Hystricidae sub-fossils reveals the evolutionary history of old world porcupines in the Late Pleistocene
• Using Ancient DNA Analysis and Radiocarbon Dating to Determine the Provenance of an Unusual Whaling Artifact
• Equitable Expanded Carrier Screening Needs Indigenous Clinical and Population Genomic Data
• The genetic origins and impacts of historical Papuan migrations into Wallacea
• Human Genetic Research in Wallacea and Sahul: Recent Findings and Future Prospects
• The immunogenetic impact of European colonization in the Americas
• A 1000-year-old case of Klinefelter's syndrome diagnosed by integrating morphology, osteology, and genetics
• Ethics of DNA research on human remains: five globally applicable guidelines
• Ancient mitochondrial genomes from the Argentinian Pampas inform the early peopling of the Southern Cone of South America
• Stochastic models support rapid peopling of Late Pleistocene Sahul
• Ten millennia of hepatitis B virus evolution.
• Runes from Lány (Czech Republic) - The oldest inscription among Slavs. A new standard for multidisciplinary analysis of runic bones
• Systematic benchmark of ancient DNA read mapping
• Genozip 14 - advances in compression of BAM and CRAM files
• Genozip Dual-Coordinate VCF format enables efficient genomic analyses and alleviates liftover limitations
• 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
• Ancient DNA from an extinct Mediterranean micromammal— Hypnomys morpheus (Rodentia: Gliridae)—Provides insight into the biogeographic history of insular dormice
• Ancient DNA Reconstructs the Genetic Legacies of Precontact Puerto Rico Communities
• A Paleogenomic Reconstruction of the Deep Population History of the Andes
• More Arrows in the Ancient DNA Quiver: Use of Paleoepigenomes and Paleomicrobiomes to Investigate Animal Adaptation to Environment
• Ancient DNA helps trace the peopling of the world
• A strategy for building and using a human reference pangenome
• Deep FASTQ and BAM co-compression in Genozip 15
• Individuals with Inflammatory Bowel Disease Have an Altered Gut Microbiome Composition of Fungi and Protozoa
• Mitogenomes Reveal Two Major Influxes of Papuan Ancestry across Wallacea Following the Last Glacial Maximum and Austronesian Contact
• Sedimentary ancient DNA from caves: Challenges and opportunities
• Allelic bias when performing in‐solution enrichment of ancient human DNA
• Equity, diversity, and inclusion at the Global Alliance for Genomics and Health
• Paleogenomic study of the Mexican past
• genozip: a fast and efficient compression tool for VCF files
• Ancient genomes reveal over two thousand years of dingo population structure
• Exploring the Potential of Genome-Wide Hybridization Capture Enrichment for Forensic DNA Profiling of Degraded Bones
• More than dirt
• Ancient DNA Studies in Pre-Columbian Mesoamerica
• A Multidisciplinary Review of the Inka Imperial Resettlement Policy and Implications for Future Investigations
• Genozip: a universal extensible genomic data compressor
• The landscape of genomic structural variation in Indigenous Australians
• Shrouded in history: Unveiling the ways of life of an early Muslim population in Santarém, Portugal (8th– 10th century AD)
• Benchmarking Imputed Low Coverage Genomes in a Human Population Genetics Context
• Cases of trisomy 21 and trisomy 18 among historic and prehistoric individuals discovered from ancient DNA
• Biological sex estimation using ancient DNA in Classic Maya contexts
• Millennial processes of population decline, range contraction and near extinction of the European bison
• Environmental conditions associated with initial northern expansion of anatomically modern humans
• Ancient DNA and morphometrics reveal a new species of extinct insular shelduck from Rekohu Chatham Islands
• A strategy for building and using a human reference pangenome
• Widespread male sex bias in mammal fossil and museum collections
• Spatiotemporal landscape genetics
• Filtering out the noise Metagenomic classifiers optimise ancient DNA mapping
• The genetic origins and impacts of historical Papuan migrations into Wallacea
• Preliminary ancient DNA screening results from first to eighth century AD sites in Samtavro and Tchkantiskedi, Georgia
• Progress and prospects in rat genetics: a community view
• High-resolution analysis of cytosine methylation in ancient DNA
• From the field to the laboratory
• Population size history from short genomic scaffolds: how short is too short?
• Data-sharing for indigenous peoples
• Race in a genome: long read sequencing, ethnicity-specific reference genomes and the shifting horizon of race
• El ADN antiguo y la historia del poblamiento temprano del oeste de Sudamérica: lo que hemos aprendido y hacia dónde vamos
• Early cave art and ancient DNA record the origin of European bison
• Molecular phylogeny, biogeography, and habitat preference evolution of Marsupials
• Chromosome Y variants from different inbred mouse strains are linked to differences in the morphologic and molecular responses of cardiac cells to postpubertal testosterone
• Ancient mitochondrial genomes clarify the evolutionary history of New Zealand's enigmatic acanthisittid wrens
• Genetic studies of the peopling of the Americas
• Ethnic and mouse strain differences in central corneal thickness and association with pigmentation phenotype
• Parallel palaeogenomic transects reveal complex genetic history of early European farmers
• A re-appraisal of the early Andean human remains from Lauricocha in Peru
• Ancient mitochondrial DNA provides high-resolution time scale of the peopling of the Americas
• AmericaPlex26
• Cardiac mass and cardiomyocyte size are governed by different genetic loci on either autosomes or chromosome Y in recombinant inbred mice
• Differential gene expression profiling of orbital adipose tissue in thyroid orbitopathy
• Iron Age and Anglo-Saxon genomes from East England reveal British migration history
• Genome-wide patterns of selection in 230 ancient Eurasians
• Experimental conditions improving in-solution target enrichment for ancient DNA
• Megafaunal isotopes reveal role of increased moisture on rangeland during late Pleistocene extinctions
• Genome of the Tasmanian tiger provides insights into the evolution and demography of an extinct marsupial carnivore
• Ancient DNA Analysis Suggests Negligible Impact of the Wari Empire Expansion in Peru's Central Coast during the Middle Horizon
• Mitochondrial genome sequencing in mesolithic North East Europe unearths a new sub-clade within the broadly distributed human haplogroup C1
• The origin and phylogenetic relationships of the New Zealand ravens
• Arrival routes of first Americans uncertain
• A paleogenetic perspective on the early population history of the high altitude Andes
• Ancient DNA reveals elephant birds and kiwi are sister taxa and clarifies ratite bird evolution
• Dual Linkage of a Locus to Left Ventricular Mass and a Cardiac Gene Co-Expression Network Driven by a Chromosome Domain
• Climate change underlies global demographic, genetic, and cultural transitions in pre-Columbian southern Peru
• Ancient mitochondrial genome reveals unsuspected taxonomic affinity of the extinct Chatham duck (Pachyanas chathamica) and resolves divergence times for New Zealand and sub-Antarctic brown teals
• Human evolution
• Molecular resolution to a morphological controversy
• Did the historical range of the European bison (Bison bonasus L.) extend further south?—a new finding from the Yenikapı Metro and Marmaray excavation, Turkey
• DNA capture and next-generation sequencing can recover whole mitochondrial genomes from highly degraded samples for human identification
• Pleistocene Chinese cave hyenas and the recent Eurasian history of the spotted hyena, Crocuta crocuta
• Neanderthal behaviour, diet, and disease inferred from ancient DNA in dental calculus
• Current evidence allows multiple models for the peopling of the Americas
• Reconstructing the Deep Population History of Central and South America
• Massive migration from the steppe was a source for Indo-European languages in Europe
• Novel effects of chromosome Y on cardiac regulation, chromatin remodeling, and neonatal programming in male mice
• Aboriginal mitogenomes reveal 50,000 years of regionalism in Australia
• Unraveling the phylogenetic relationships of the extinct bovid Myotragus balearicus Bate 1909 from the Balearic Islands
• Low-cost cross-taxon enrichment of mitochondrial DNA using in-house synthesised RNA probes
• Reply to Santiago-Rodriguez et al.
• An extinct nestorid parrot (Aves, Psittaciformes, Nestoridae) from the Chatham Islands, New Zealand
• Late Pleistocene Australian marsupial DNA clarifies the affinities of extinct megafaunal kangaroos and wallabies
• Further dissection of a genomic locus associated with behavioral activity in the Wistar-Kyoto hyperactive rat, an animal model of hyperkinesis
• Identification and validation of Loci and candidate genes linked to cardiac hypertrophy.
• The Collaborative Cross, a community resource for the genetic analysis of complex traits
• A genetic locus accentuates the effect of volume overload on adverse left ventricular remodeling in male and female rats
• Distinct QTLs are linked to cardiac left ventricular mass in a sex-specific manner in a normotensive inbred rat intercross
• Corticosteroid binding globulin
• QTL mapping for traits associated with stress neuroendocrine reactivity in rats
• Genetic determinants of systolic and pulse pressure in an intercross between normotensive inbred rats
• Hypertensive cardiac remodeling in males and females