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Genetic history from the Middle Neolithic to present on the Mediterranean island of Sardinia

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Combined methodologies for gaining much information from ancient dental calculus: testing experimental strategies for simultaneously analysing DNA and food residues

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The spread of steppe and Iranian-related ancestry in the islands of the western Mediterranean

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Ancient genomes from present-day France unveil 7,000 years of its demographic history

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Ancient genome-wide DNA from France highlights the complexity of interactions between Mesolithic hunter-gatherers and Neolithic farmers

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Assessing DNA Sequence Alignment Methods for Characterizing Ancient Genomes and Methylomes

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A unified protocol for simultaneous extraction of DNA and proteins from archaeological dental calculus

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(2020) Lara M. Cassidy et al.   NATURE

THE INTCAL20 NORTHERN HEMISPHERE RADIOCARBON AGE CALIBRATION CURVE (0–55 CAL kBP)

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2000-year-old pathogen genomes reconstructed from metagenomic analysis of Egyptian mummified individuals

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Multi-omic detection of Mycobacterium leprae in archaeological human dental calculus

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Investigating the demographic history of Japan using ancient oral microbiota

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Functional diversity of microbial ecologies estimated from ancient human coprolites and dental calculus

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Paleogenomic insights into the red complex bacteria Tannerella forsythia in Pre-Hispanic and Colonial individuals from Mexico

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Metagenomics of the modern and historical human oral microbiome with phylogenetic studies on Streptococcus mutans and Streptococcus sobrinus

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The genomic history of the Iberian Peninsula over the past 8000 years

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Survival of Late Pleistocene Hunter-Gatherer Ancestry in the Iberian Peninsula

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Tracking Five Millennia of Horse Management with Extensive Ancient Genome Time Series

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Joint Estimates of Heterozygosity and Runs of Homozygosity for Modern and Ancient Samples

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DamMet: ancient methylome mapping accounting for errors, true variants, and post-mortem DNA damage

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Ancient genomes indicate population replacement in Early Neolithic Britain

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Microbial differences between dental plaque and historic dental calculus are related to oral biofilm maturation stage

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Ancient DNA sheds light on the genetic origins of early Iron Age Philistines

(2019) Michal Feldman et al.   Science Advances

The formation of human populations in South and Central Asia

(2019) Vagheesh M. Narasimhan et al.   SCIENCE

A 5700 year-old human genome and oral microbiome from chewed birch pitch

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The evolutionary history of human populations in Europe

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The HIrisPlex-S system for eye, hair and skin colour prediction from DNA: Introduction and forensic developmental validation

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Gene–environment interaction of monoamine oxidase A in relation to antisocial behaviour: current and future directions

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Estimating genetic kin relationships in prehistoric populations

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Ancient genomes revisit the ancestry of domestic and Przewalski’s horses

(2018) Charleen Gaunitz et al.   SCIENCE

The genetic prehistory of the Baltic Sea region

(2018) Alissa Mittnik et al.   Nature Communications

Differential preservation of endogenous human and microbial DNA in dental calculus and dentin

(2018) Allison E. Mann et al.   Scientific Reports

Population genomics of Mesolithic Scandinavia: Investigating early postglacial migration routes and high-latitude adaptation

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A probable prehistoric case of meningococcal disease from San Francisco Bay: Next generation sequencing of Neisseria meningitidis from dental calculus and osteological evidence

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The genomic history of southeastern Europe

(2018) Iain Mathieson et al.   NATURE

The Beaker phenomenon and the genomic transformation of northwest Europe

(2018) Iñigo Olalde et al.   NATURE

Extraction of highly degraded DNA from ancient bones, teeth and sediments for high-throughput sequencing

(2018) Nadin Rohland et al.   Nature Protocols

The antiquity of the spondyloarthritides: Presentation of one of the oldest Neolithic cases in Western Europe

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Parallel palaeogenomic transects reveal complex genetic history of early European farmers

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Gene ORGANizer: linking genes to the organs they affect

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Why this revolution? Explaining the major technical shift in Southwestern Europe during the 7th millennium cal. BC

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The Demographic Development of the First Farmers in Anatolia

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Fast, Accurate and Automatic Ancient Nucleosome and Methylation Maps with epiPALEOMIX

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Combining bleach and mild predigestion improves ancient DNA recovery from bones

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Genomic insights into the origin of farming in the ancient Near East

(2016) Iosif Lazaridis et al.   NATURE

The Simons Genome Diversity Project: 300 genomes from 142 diverse populations

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The genetic history of Ice Age Europe

(2016) Qiaomei Fu et al.   NATURE

Genomic analysis of Andamanese provides insights into ancient human migration into Asia and adaptation

(2016) Mayukh Mondal et al.   NATURE GENETICS

Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center

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Early farmers from across Europe directly descended from Neolithic Aegeans

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Early Neolithic genomes from the eastern Fertile Crescent

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Bayesian Analysis of Radiocarbon Dates

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Improved age determination of blood and teeth samples using a selected set of DNA methylation markers

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An efficient and scalable analysis framework for variant extraction and refinement from population-scale DNA sequence data

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Genome-wide patterns of selection in 230 ancient Eurasians

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

(2015) Wolfgang Haak et al.   NATURE

Population genomics of Bronze Age Eurasia

(2015) Morten E. Allentoft et al.   NATURE

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(2015) Duy Tin Truong et al.   NATURE METHODS

Neolithic and Bronze Age migration to Ireland and establishment of the insular Atlantic genome

(2015) Lara M. Cassidy et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ancient Ethiopian genome reveals extensive Eurasian admixture in Eastern Africa

(2015) M. Gallego Llorente et al.   SCIENCE

Improving access to endogenous DNA in ancient bones and teeth

(2015) Peter B. Damgaard et al.   Scientific Reports

ANGSD: Analysis of Next Generation Sequencing Data

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Ancient human genomes suggest three ancestral populations for present-day Europeans

(2014) Iosif Lazaridis et al.   NATURE

The genome of a Late Pleistocene human from a Clovis burial site in western Montana

(2014) Morten Rasmussen et al.   NATURE

Pathogens and host immunity in the ancient human oral cavity

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Characterization of ancient and modern genomes by SNP detection and phylogenomic and metagenomic analysis using PALEOMIX

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Partial uracil-DNA-glycosylase treatment for screening of ancient DNA

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Reconstructing the DNA Methylation Maps of the Neandertal and the Denisovan

(2014) D. Gokhman et al.   SCIENCE

Genome flux and stasis in a five millennium transect of European prehistory

(2014) Cristina Gamba et al.   Nature Communications

mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters

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Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome

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Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse

(2013) Ludovic Orlando et al.   NATURE

Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans

(2013) Maanasa Raghavan et al.   NATURE

The complete genome sequence of a Neanderthal from the Altai Mountains

(2013) Kay Prüfer et al.   NATURE

Sequencing ancient calcified dental plaque shows changes in oral microbiota with dietary shifts of the Neolithic and Industrial revolutions

(2013) Christina J Adler et al.   NATURE GENETICS

DNA methylation age of human tissues and cell types

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Ancient Admixture in Human History

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Fast gapped-read alignment with Bowtie 2

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PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees

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Cross-biome metagenomic analyses of soil microbial communities and their functional attributes

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A High-Coverage Genome Sequence from an Archaic Denisovan Individual

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Testing for Ancient Admixture between Closely Related Populations

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An Aboriginal Australian Genome Reveals Separate Human Dispersals into Asia

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When the World's Population Took Off: The Springboard of the Neolithic Demographic Transition

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The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

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HaploGrep: a fast and reliable algorithm for automatic classification of mitochondrial DNA haplogroups

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The Neandertal genome and ancient DNA authenticity

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Fast model-based estimation of ancestry in unrelated individuals

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Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Dental caries, tooth wear and diet in an adult medieval (12th–14th century) population from mediterranean France

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