[PDF][PDF] The genomic origins of the world's first farmers
…, SM Figarska, E Ganiatsou, A Pukaj, TJ Struck… - Cell, 2022 - cell.com
The precise genetic origins of the first Neolithic farming populations in Europe and Southwest
Asia, as well as the processes and the timing of their differentiation, remain largely …
Asia, as well as the processes and the timing of their differentiation, remain largely …
A community-maintained standard library of population genetic models
…, D Ortega-Del Vecchyo, F Racimo, TJ Struck… - elife, 2020 - elifesciences.org
The explosion in population genomic data demands ever more complex modes of analysis,
and increasingly, these analyses depend on sophisticated simulations. Recent advances in …
and increasingly, these analyses depend on sophisticated simulations. Recent advances in …
Inferring genome-wide correlations of mutation fitness effects between populations
…, AL Fortier, AJ Coffman, TJ Struck… - Molecular Biology …, 2021 - academic.oup.com
The effect of a mutation on fitness may differ between populations depending on environmental
and genetic context, but little is known about the factors that underlie such differences. …
and genetic context, but little is known about the factors that underlie such differences. …
Demes: a standard format for demographic models
Understanding the demographic history of populations is a key goal in population genetics,
and with improving methods and data, ever more complex models are being proposed and …
and with improving methods and data, ever more complex models are being proposed and …
Triallelic population genomics for inferring correlated fitness effects of same site nonsynonymous mutations
The distribution of mutational effects on fitness is central to evolutionary genetics. Typical
univariate distributions, however, cannot model the effects of multiple mutations at the same site…
univariate distributions, however, cannot model the effects of multiple mutations at the same site…
[HTML][HTML] The impact of genome-wide association studies on biomedical research publications
TJ Struck, BK Mannakee, RN Gutenkunst - Human Genomics, 2018 - Springer
The past decade has seen major investment in genome-wide association studies (GWAS).
Among the many goals of GWAS, a major one is to identify and motivate research on novel …
Among the many goals of GWAS, a major one is to identify and motivate research on novel …
[HTML][HTML] Computationally efficient demographic history inference from allele frequencies with supervised machine learning
LN Tran, CK Sun, TJ Struck, M Sajan, RN Gutenkunst - bioRxiv, 2023 - ncbi.nlm.nih.gov
Inferring past demographic history of natural populations from genomic data is of central
concern in many studies across research fields. Previously, our group had developed dadi, a …
concern in many studies across research fields. Previously, our group had developed dadi, a …
Testing whether metazoan tyrosine loss was driven by selection against promiscuous phosphorylation
S Pandya, TJ Struck, BK Mannakee… - Molecular biology …, 2015 - academic.oup.com
Protein tyrosine phosphorylation is a key regulatory modification in metazoans, and the
corresponding kinase enzymes have diversified dramatically. This diversification is correlated …
corresponding kinase enzymes have diversified dramatically. This diversification is correlated …
[HTML][HTML] dadi-cli: Automated and distributed population genetic model inference from allele frequency spectra
X Huang, TJ Struck, SW Davey, RN Gutenkunst - bioRxiv, 2023 - ncbi.nlm.nih.gov
dadi is a popular software package for inferring models of demographic history and natural
selection from population genomic data. But using dadi requires Python scripting and manual …
selection from population genomic data. But using dadi requires Python scripting and manual …
DFEnitely different: genome-wide characterization of differences in mutation fitness effects between populations
AL Fortier, AJ Coffman, TJ Struck, MN Irby… - bioRxiv, 2019 - biorxiv.org
The effect of a mutation on fitness may differ between populations, depending on environmental
and genetic context. Experimental studies have shown that such differences exist, but …
and genetic context. Experimental studies have shown that such differences exist, but …