Experimental conditions improving in-solution target enrichment for ancient DNA

Nuclear DNA sequences from the Middle Pleistocene Sima de los Huesos hominins

(2016) Matthias Meyer et al.   NATURE

Evolutionary Patterns and Processes: Lessons from Ancient DNA

(2016) Michela Leonardi et al.   SYSTEMATIC BIOLOGY

Quantitative PCR as a predictor of aligned ancient DNA read counts following targeted enrichment

(2016) Jacob Enk et al.   BIOTECHNIQUES

Reducing microbial and human contamination in DNA extractions from ancient bones and teeth

(2015) Petra Korlević et al.   BIOTECHNIQUES

Complete Genomes Reveal Signatures of Demographic and Genetic Declines in the Woolly Mammoth

(2015) Eleftheria Palkopoulou et al.   CURRENT BIOLOGY

Evolutionary Genomics and Conservation of the Endangered Przewalski’s Horse

(2015) Clio Der Sarkissian et al.   CURRENT BIOLOGY

Major transitions in human evolution revisited: A tribute to ancient DNA

(2015) Luca Ermini et al.   JOURNAL OF HUMAN EVOLUTION

Impact of enrichment conditions on cross-species capture of fresh and degraded DNA

(2015) Johanna L. A. Paijmans et al.   Molecular Ecology Resources

Sequence capture of ultraconserved elements from bird museum specimens

(2015) John E. McCormack et al.   Molecular Ecology Resources

Comparing the performance of three ancient DNA extraction methods for high-throughput sequencing

(2015) Cristina Gamba et al.   Molecular Ecology Resources

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

Regulatory mutations in TBX3 disrupt asymmetric hair pigmentation that underlies Dun camouflage color in horses

(2015) Freyja Imsland et al.   NATURE GENETICS

Reconstructing ancient genomes and epigenomes

(2015) Ludovic Orlando et al.   NATURE REVIEWS GENETICS

Tracking the origins of Yakutian horses and the genetic basis for their fast adaptation to subarctic environments

(2015) Pablo Librado et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative performance of two whole-genome capture methodologies on ancient DNA Illumina libraries

(2015) María C. Ávila-Arcos et al.   Methods in Ecology and Evolution

Pros and cons of methylation-based enrichment methods for ancient DNA

(2015) Andaine Seguin-Orlando et al.   Scientific Reports

Improving access to endogenous DNA in ancient bones and teeth

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

Elephantid Genomes Reveal the Molecular Bases of Woolly Mammoth Adaptations to the Arctic

(2015) Vincent J. Lynch et al.   Cell Reports

Optimal Ancient DNA Yields from the Inner Ear Part of the Human Petrous Bone

(2015) Ron Pinhasi et al.   PLoS One

Detection of Cytosine Methylation in Ancient DNA from Five Native American Populations Using Bisulfite Sequencing

(2015) Rick W. A. Smith et al.   PLoS One

The future of ancient DNA: Technical advances and conceptual shifts

(2014) Michael Hofreiter et al.   BIOESSAYS

Ancient Whole Genome Enrichment Using Baits Built from Modern DNA

(2014) Jacob M. Enk et al.   MOLECULAR BIOLOGY AND EVOLUTION

Shotgun microbial profiling of fossil remains

(2014) C. Der Sarkissian et al.   MOLECULAR ECOLOGY

Fifty thousand years of Arctic vegetation and megafaunal diet

(2014) Eske Willerslev et al.   NATURE

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

(2014) Mikkel Schubert et al.   Nature Protocols

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

(2014) N. Rohland et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Ancient genomics

(2014) C. Der Sarkissian et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Hybridization Capture Using Short PCR Products Enriches Small Genomes by Capturing Flanking Sequences (CapFlank)

(2014) Kyriakos Tsangaras et al.   PLoS One

Prehistoric genomes reveal the genetic foundation and cost of horse domestication

(2014) Mikkel Schubert et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2014) Cristina Gamba et al.   Nature Communications

Pulling out the 1%: Whole-Genome Capture for the Targeted Enrichment of Ancient DNA Sequencing Libraries

(2013) Meredith L. Carpenter et al.   AMERICAN JOURNAL OF HUMAN GENETICS

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

(2013) Hákon Jónsson et al.   BIOINFORMATICS

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

(2013) Ludovic Orlando et al.   NATURE

The complete genome sequence of a Neanderthal from the Altai Mountains

(2013) Kay Prüfer et al.   NATURE

Predicting the molecular complexity of sequencing libraries

(2013) Timothy Daley et al.   NATURE METHODS

Complete mitochondrial genome sequence of a Middle Pleistocene cave bear reconstructed from ultrashort DNA fragments

(2013) J. Dabney et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Length and GC-biases during sequencing library amplification: A comparison of various polymerase-buffer systems with ancient and modern DNA sequencing libraries

(2012) Jesse Dabney et al.   BIOTECHNIQUES

Improving the performance of True Single Molecule Sequencing for ancient DNA

(2012) Aurelien Ginolhac et al.   BMC GENOMICS

Improving ancient DNA read mapping against modern reference genomes

(2012) Mikkel Schubert et al.   BMC GENOMICS

Fast Computation and Applications of Genome Mappability

(2012) Thomas Derrien et al.   PLoS One

How to Open the Treasure Chest? Optimising DNA Extraction from Herbarium Specimens

(2012) Tiina Särkinen et al.   PLoS One

A High-Coverage Genome Sequence from an Archaic Denisovan Individual

(2012) M. Meyer et al.   SCIENCE

New insights into the Tyrolean Iceman's origin and phenotype as inferred by whole-genome sequencing

(2012) Andreas Keller et al.   Nature Communications

A High Density SNP Array for the Domestic Horse and Extant Perissodactyla: Utility for Association Mapping, Genetic Diversity, and Phylogeny Studies

(2012) Molly E. McCue et al.   PLoS Genetics

Efficient cross-species capture hybridization and next-generation sequencing of mitochondrial genomes from noninvasively sampled museum specimens

(2011) V. C. Mason et al.   GENOME RESEARCH

Application and comparison of large-scale solution-based DNA capture-enrichment methods on ancient DNA

(2011) María C. Ávila-Arcos et al.   Scientific Reports

Fossil avian eggshell preserves ancient DNA

(2010) C. L. Oskam et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Targeted Investigation of the Neandertal Genome by Array-Based Sequence Capture

(2010) H. A. Burbano et al.   SCIENCE

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Genome Sequence, Comparative Analysis, and Population Genetics of the Domestic Horse

(2009) C. M. Wade et al.   SCIENCE

Paleo-Eskimo mtDNA Genome Reveals Matrilineal Discontinuity in Greenland

(2008) M. T. P. Gilbert et al.   SCIENCE