Jared Brown

Recurrent oncogenic ZC3H18 mutations stabilize endogenous retroviral RNA

This study identifies ZC3H18 mutations that stabilize endogenous retroviral RNA, linking ERV RNA accumulation to oncogenesis in zebrafish and human cell lines.

SpatialCorr: Identifying Gene Sets with Spatially Varying Correlation Structure

SpatialCorr identifies gene sets with spatially varying correlation structure in spatial transcriptomics data, revealing insights not found with existing methods.

The Anna Karenina model of beta cell maturation in development and their dedifferentiation in type 1 and type 2 diabetes

The paper tests two models of beta cell dedifferentiation in diabetes using lineage tracing and RNA-seq in mice, showing dedifferentiation is not a reversal of development but varies by diabetes type.

Normalization by distributional resampling of high throughput single-cell RNA-sequencing data

The paper introduces Dino, a normalization method for single-cell RNA-seq data that improves downstream analysis by normalizing the entire gene expression distribution.

Interspecies Chimeric Conditions Affect the Developmental Rate of Human Pluripotent Stem Cells

This study shows that co-differentiating human and mouse pluripotent stem cells accelerates human neural differentiation, with gene expression changes correlating with in utero development.

CB2 distinguishes cells from background barcodes in 10x Genomics data

CB2 improves cell identification in 10x Genomics data by leveraging cell-to-cell correlations to distinguish real cells from background barcodes.