Mattias Jakobsson

The paper analyzes ancestry, admixture, and pathogens in Neolithic farmers and foragers from Gotland, finding recent gene flow and widespread Yersinia pestis strains.

The paper introduces the Tweap protocol, an optimized target enrichment method for ancient DNA, which reduces costs and increases SNP recovery compared to the Twist protocol.

The paper introduces a statistic to detect population continuity and ghost admixture in ancient genomes by analyzing temporal drift and admixture effects.

This study uses whole-genome sequencing and machine learning to reconstruct demographic history and gene-flow patterns among African populations, finding that tree-like histories with gene-flow pulses better explain genetic diversity than continuous gene-flow.

The paper identifies ancient DNA of Rickettsia felis and Toxoplasma gondii in a 2,000-year-old South African hunter-gatherer child, linking them to his illness and death.

This study evaluates genotype imputation for ancient DNA using Beagle 4.0 and 1000 Genomes reference data, showing high accuracy even at low coverage and highlighting the benefits of diverse reference sets and low-coverage samples.

The paper analyzes genetic structure in Brittany and the Loire basin to understand Western Europe's demographic history, finding increased population differentiation linked to steppe and Neolithic ancestry.

This study evaluates imputation methods for ancient DNA data using Beagle 4.0 and 1000 Genomes reference data, showing high accuracy at low coverage and benefits of phased references and low-coverage samples.

This study examines how immune-related traits evolved in ancient and modern European populations, finding that the Neolithic transition influenced cytokine production and disease susceptibility.

This paper introduces two methods for estimating divergence times from DNA sequences using coalescent theory and demonstrates their robustness to demographic complexities.

This study presents the first genomic analysis of early Islamic burials in the Levant, finding genomic similarity to modern Bedouins and Saudis rather than neighboring Levantine groups.

The paper examines lactase persistence allele frequencies in Sudanese and South Sudanese populations, finding higher LP-associated alleles in pastoralists and identifying the -14009:G variant as the most frequent.

This paper introduces SUGIBS, a robust genome-wide ancestry inference method, and applies it to predict ancestry faces using the 1000 Genomes Project and facial imaging data.

The paper develops a tool to estimate genetic kin relationships in prehistoric populations using degraded ancient DNA data, revealing previously unknown family ties.

The paper analyzes genomic data from Mesolithic Scandinavians to show two colonization routes and genetic adaptations to high-latitude environments.

The paper analyzes ancient genomes from southern Africa to show that modern human divergence occurred over 260,000 years ago, pushing back previous estimates and linking it to the Middle Stone Age and anatomical changes in the fossil record.

The paper responds to criticism of male-biased admixture estimates from Bronze Age migrations by analyzing X-chromosomal and autosomal ancestry in ancient samples.

The paper uses ancient genomic data to show that cultural and lifestyle factors, rather than geography, shaped genomic differentiation in prehistoric Europe.

This study uses ancient population genomic techniques to trace the origin and evolution of maize in the American Southwest, identifying two diffusion routes and genetic adaptations to local environments.