Forensic and Genetic Research

Genetic ancestry in Puerto Rican Afro-descendants illustrates diverse histories of African diasporic populations

The paper analyzes genetic ancestry of Afro-Puerto Ricans, revealing African origins similar to Lower Guinea and Bight of Biafra, and European origins similar to Iberian, Italian, and Basque populations.

An explanation for the sister repulsion phenomenon in Patterson's f-statistics

The paper explains the sister repulsion phenomenon in Patterson's f-statistics by proposing a demographic model involving gene flow from an external source.

Archaeogenetic analysis revealed East Eurasian paternal origin to the Aba royal family of Hungary

The paper uses genome analysis to trace the paternal origin of the Aba royal family in Hungary to East Eurasia, linking them to Mongolian ancestry and medieval Hungarian elites.

Pervasive findings of directional selection realize the promise of ancient DNA to elucidate human adaptation

This paper detects widespread directional selection in ancient DNA data, identifying 347 genome-wide significant loci and linking them to traits like body fat, skin color, and cognitive performance.

Bone adhered soil as a source of target and environmental DNA and proteins

This study analyzes soil adhered to human remains to recover environmental DNA and proteins, revealing microbial, animal, plant, and human genetic information from Neolithic to Medieval sites in England.

Detecting population continuity and ghost admixture among ancient genomes

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

The genomic and cultural diversity of the Inka Qhapaq hucha ceremony in Chile and Argentina

This study analyzes ancient genomes from Inka ritual sites to assess genetic diversity and population dynamics in the Andes.

Y chromosome STR variation reveals traditional occupation based population structure in India

This study uses Y chromosome STR variation from Indian and Eurasian males to show that Neolithic agricultural expansion shaped the male gene pool, with haplogroups F, L, and R1a associated with hunter-gatherer, agricultural, and priestly groups respectively.

Number of ancestors and length of identity-by-descent tracks over time

This study simulates genetic ancestry in small populations, showing that genetic ancestors grow more slowly than genealogical ancestors and that ROHs are common due to genetic drift.

Early founder effects have determined paternal population structure in the Faroe Islands

This study uses Y-chromosomal microsatellites to detect founder effects in the Faroe Islands and Iceland, finding distinct paternal genetic structures with no post-founder admixture between the two groups.

mtDNA "Nomenclutter" and its Consequences on the Interpretation of Genetic Data

The paper examines how inconsistent mtDNA haplogroup nomenclature affects genetic data interpretation and proposes standardized secondary groupings to improve reproducibility and accuracy.

Mispitools: An R Package for Comprehensive Statistical Methods in Kinship Inference

Mispitools provides statistical methods for kinship inference in missing persons searches by integrating diverse evidence types and computing likelihood ratios.

Exploring ancestry inference of the Middle East

The paper identifies and evaluates ancestry informative markers (AIMs) for the Middle East using whole-genome sequencing data and a deep learning tool for ancestry visualization.

Ancestral genetic components are consistently associated with the complex trait landscape in European biobanks

This study investigates the association between ancestral genetic components and complex traits in European biobanks, finding that these components contribute to trait variation and act as confounders.

High-coverage genome sequencing of Yayoi and Jomon individuals shed light on prehistoric human population history in East Eurasian

This study presents high-coverage genomes from Yayoi and Jomon individuals, revealing genetic differences and dietary adaptations linked to agricultural practices in ancient Japan.

Standardising a microbiome pipeline for body fluid identification from complex crime scene stains

This study develops a random forest classifier to identify body fluids from complex crime scene stains using microbiome data, achieving an F1 score of 0.89 on forensic samples.

Low-ABC: a robust demographic Inference from low-coverage whole-genome data through ABC

Low-ABC improves demographic inference from low-coverage whole-genome data by using genotype likelihoods instead of called genotypes, enabling reliable analysis of population history.

Low LRs obtained from DNA mixtures: On calibration and discrimination performance of probabilistic genotyping software

This study evaluates the calibration and discriminatory power of probabilistic genotyping software in low likelihood ratio ranges using the PROVEDIt dataset.

Testing Times: Challenges in Disentangling Admixture Histories in Recent and Complex Demographies

This study evaluates the performance of qpAdm and f3-statistic in admixture inference under historical and ancient DNA conditions, showing limitations in resolving fine-scale hypotheses but potential for improvement with better f-statistic methods.

Ancient tree-topologies and gene-flow processes among human lineages in Africa

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.

RFMix-reader: Accelerated reading and processing for local ancestry studies

RFMix-reader efficiently processes large RFMix output files for local ancestry studies, improving computational efficiency and memory usage.

Resolving the source of branch length variation in the Y chromosome phylogeny

The paper shows that reference bias causes branch length variation in Y chromosome phylogeny and proposes masking fast-evolving regions to improve accuracy.

The first complete genome of the extinct European wild ass (Equus hemionus hydruntinus)

The paper presents paleogenomes of three Anatolian equids from the 1st millennium BCE, identifying them as the extinct European wild ass, E. hydruntinus, and revealing genetic relationships and diversity loss.

YHP: Y-chromosome Haplogroup Predictor for predicting male lineages based on Y-STRs

YHP predicts high-resolution Y-chromosome haplogroups from Y-STR data, enabling efficient male lineage analysis without requiring Y-SNP sequencing.

AEon: A global genetic ancestry estimation tool

AEon estimates global genetic ancestry from VCF/BCF files, offering faster and more accurate results than ADMIXTURE with built-in reference populations and visualization tools.

Investigating demic versus cultural diffusion and sex bias in the spread of Austronesian languages in Vietnam

This study analyzes genetic data from Austronesian and Austroasiatic groups in Vietnam to determine whether language spread was due to demic or cultural diffusion, finding evidence of both.

The Genetic History of the South Caucasus from the Bronze to the Early Middle Ages: 5000 years of genetic continuity despite high mobility

This study analyzes ancient DNA from the South Caucasus over 5000 years, showing genetic continuity despite high mobility and admixture from Anatolia, the steppe, and southern populations.

Bronze Age Northern Eurasian Genetics in the Context of Development of Metallurgy and Siberian Ancestry

This study analyzes the genetic profiles of Bronze Age metallurgical individuals to explore genetic heterogeneity and the spread of Siberian ancestry across Northern Eurasia.

Likelihood Ratios for physical traits in forensicinvestigations

This paper develops new likelihood ratio models for DNA phenotyping in forensic investigations and introduces an R package for their application.

Endemic demographics of the Jomon people estimated based on complete mitogenomes reveal their regional diversity

The paper estimates the demographic history of the Jomon people using complete mitogenomes, revealing an effective population size increase during the Incipient-Initial phase not seen in present-day Japanese populations.