BACKGROUND: Single-cell RNA-sequencing (scRNA) datasets are becoming increasingly popular in clinical and cohort studies, but there is a lack of methods to investigate differentially expressed (DE) genes among such datasets with numerous individuals. While numerous methods exist to find DE genes for scRNA data from limited individuals, differential-expression testing for large cohorts of case and control individuals using scRNA data poses unique challenges due to substantial effects of human variation, i.e., individual-level confounding covariates that are difficult to account for in the presence of sparsely-observed genes. RESULTS: We develop the eSVD-DE, a matrix factorization that pools information across genes and removes confounding covariate effects, followed by a novel two-sample test in mean expression between case and control individuals. In general, differential testing after dimension reduction yields an inflation of Type-1 errors. However, we overcome this by testing for differences between the case and control individuals' posterior mean distributions via a hierarchical model. In previously published datasets of various biological systems, eSVD-DE has more accuracy and power compared to other DE methods typically repurposed for analyzing cohort-wide differential expression. CONCLUSIONS: eSVD-DE proposes a novel and powerful way to test for DE genes among cohorts after performing a dimension reduction. Accurate identification of differential expression on the individual level, instead of the cell level, is important for linking scRNA-seq studies to our understanding of the human population.

Social biases on Wikipedia, a widely-read global platform, could greatly influence public opinion. While prior research has examined man/woman gender bias in biography articles, possible influences of other demographic attributes limit conclusions. In this work, we present a methodology for analyzing Wikipedia pages about people that isolates dimensions of interest (e.g., gender), from other attributes (e.g., occupation). Given a target corpus for analysis (e.g. biographies about women), we present a method for constructing a comparison corpus that matches the target corpus in as many attributes as possible, except the target one. We develop evaluation metrics to measure how well the comparison corpus aligns with the target corpus and then examine how articles about gender and racial minorities (cis. women, non-binary people, transgender women, and transgender men; African American, Asian American, and Hispanic/Latinx American people) differ from other articles. In addition to identifying suspect social biases, our results show that failing to control for covariates can result in different conclusions and veil biases. Our contributions include methodology that facilitates further analyses of bias in Wikipedia articles, findings that can aid Wikipedia editors in reducing biases, and a framework and evaluation metrics to guide future work in this area.

Detecting when the underlying distribution changes for the observed time series is a fundamental problem arising in a broad spectrum of applications. In this paper, we study multiple change-point localization in the high-dimensional regression setting, which is particularly challenging as no direct observations of the parameter of interest is available. Specifically, we assume we observe $\{ x_t, y_t\}_{t=1}^n$ where $ \{ x_t\}_{t=1}^n $ are $p$-dimensional covariates, $\{y_t\}_{t=1}^n$ are the univariate responses satisfying $\mathbb{E}(y_t) = x_t^\top \beta_t^* \text{ for } 1\le t \le n $ and $\{\beta_t^*\}_{t=1}^n $ are the unobserved regression coefficients that change over time in a piecewise constant manner. We propose a novel projection-based algorithm, Variance Projected Wild Binary Segmentation~(VPWBS), which transforms the original (difficult) problem of change-point detection in $p$-dimensional regression to a simpler problem of change-point detection in mean of a one-dimensional time series. VPWBS is shown to achieve sharp localization rate $O_p(1/n)$ up to a log factor, a significant improvement from the best rate $O_p(1/\sqrt{n})$ known in the existing literature for multiple change-point localization in high-dimensional regression. Extensive numerical experiments are conducted to demonstrate the robust and favorable performance of VPWBS over two state-of-the-art algorithms, especially when the size of change in the regression coefficients $\{\beta_t^*\}_{t=1}^n $ is small.