ArticlebioRxiv : the preprint server for biology2026
Scalable ARG-free Detection of Denisovan-mediated Superarchaic Introgression Reveals Heterogeneous Patterns across Populations.
Article in bioRxiv : the preprint server for biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Ghost introgression from unsampled hominin lineages has emerged as an increasingly important component of human evolutionary history. Recent studies suggest that deeply divergent hominin lineages may have contributed ancestry either directly to modern humans or indirectly through Denisovan introgression, while inference remains difficult due to few reference genomes, weak signal, and uncertainty in reconstructing deep genealogies. Here we show analytically and through simulations that Denisovan-mediated superarchaic introgression produces predictable shifts in local coalescent depth that can be approximated by scalable summary statistics, particularly pairwise sequence divergence, suggesting that substantial information regarding deeply divergent ancestry is preserved in sequence variations without explicit reconstruction of genealogies. Leveraging this insight, we develop DEEP (
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