New paper (behind paywall), Ancient human parallel lineages within North America contributed to a coastal expansion, by Scheib et al. Science (2018) 360(6392):1024-1027.
Little is known regarding the first people to enter the Americas and their genetic legacy. Genomic analysis of the oldest human remains from the Americas showed a direct relationship between a Clovis-related ancestral population and all modern Central and South Americans as well as a deep split separating them from North Americans in Canada. We present 91 ancient human genomes from California and Southwestern Ontario and demonstrate the existence of two distinct ancestries in North
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Interesting open access paper Exploring patterns enriched in a dataset with contrastive principal component analysis, by Abid, Zhang, Bagaria & Zou, Nature Communications (2018) 9:2134.
Abstract (emphasis mine):
Visualization and exploration of high-dimensional data is a ubiquitous challenge across disciplines. Widely used techniques such as principal component analysis (PCA) aim to identify dominant trends in one dataset. However, in many settings we have datasets collected under different conditions, e.g., a treatment and a control experiment, and we are interested in visualizing and exploring patterns that are specific to one dataset. This paper proposes a method, contrastive principal component analysis
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New article, Successful reconstruction of whole mitochondrial genomes from ancient Central America and Mexico, by Morales-Arce et al., Scientific Reports (2017).
The northern and southern peripheries of ancient Mesoamerica are poorly understood. There has been speculation over whether borderland cultures such as Greater Nicoya and Casas Grandes represent Mesoamerican outposts in the Isthmo-Colombian area and the Greater Southwest, respectively. Poor ancient DNA preservation in these regions challenged previous attempts to resolve these questions using conventional genetic techniques. We apply advanced in-solution mitogenome capture and high-throughput sequencing to fourteen dental samples obtained from the Greater Nicoya sites of Jícaro
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