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Improving reproducibility of differentially expressed genes in single-cell transcriptomic studies of neurodegenerative diseases through meta-analysis

2 months ago
False positive claims of differentially expressed genes (DEGs) in scRNA-seq studies are of substantial concern. We found that DEGs from individual Parkinson's (PD), Huntington's (HD), and COVID-19 datasets had moderate predictive power for case-control status of other datasets, but DEGs from Alzheimer's (AD) and Schizophrenia (SCZ) datasets had poor predictive power. We developed a non-parametric meta-analysis method, SumRank, based on reproducibility of relative differential expression ranks...
Nathan Nakatsuka

The Influence of CG sites on dynamic DNA sequence mutagenesis in the genomic evolution of mammalian lifespan

2 months ago
Previous work showed that natural selection has acted to minimize the genomic frequencies of representative dynamic DNA sequences capable of forming G-quadruplex, Triplex, hairpin, and i-motif structures in long-lived mammals, thus diminishing the mutagenic potential of their genomes. This report extends findings with single sequences to broadly distributed G3-4N1-7G3-4N1-7G3-4N1-7G3-4 dynamic sequence motifs and identifies a second, previously unknown, pool of dynamic DNA sequences that escape...
Steven S Smith

Modeling the genomic architecture of adiposity and anthropometrics across the lifespan

2 months ago
Obesity-related conditions are among the leading causes of preventable death and are increasing in prevalence worldwide. Body size and composition are complex traits that are challenging to characterize due to environmental and genetic influences, longitudinal variation, heterogeneity between sexes, and differing health risks based on adipose distribution. Here, we construct a 4-factor genomic structural equation model using 18 measures, unveiling shared and distinct genetic architectures...
Christopher H Arehart