Stacey B. Andersen

High-throughput sequencing of unmethylated DNA (UMR-seq) reveals extensive epigenetic variation in the hypomethylome of diverse plant species

UMR-seq reveals epigenetic variation in plant hypomethylomes, showing UMRs are enriched in regulatory loci and improve genomic prediction and trait association mapping in wheat.

Dnmt3a-mutant Leukemia Stem Cells evade chemotherapy through enforced quiescence in Npm1c-Flt3ITD Acute Myeloid Leukemia

This study shows that DNMT3A mutations in AML promote chemotherapy resistance by enforcing quiescence in leukemia stem cells, which can be reversed with pegIFN to restore sensitivity.

The impact of sex on the immune system explored at the single-cell level

The paper examines sex differences in the immune system at the single-cell level, identifying sex-biased genes and eQTLs linked to autoimmune diseases.

A pluripotent stem cell atlas of multilineage differentiation reveals TMEM88 as a developmental regulator of mammalian blood pressure

The paper creates an iPSC differentiation atlas and identifies TMEM88 as a regulator of mesendodermal development and blood pressure.

HOPX governs a molecular and physiological switch between cardiomyocyte progenitor and maturation gene programs

This study identifies HOPX as a molecular switch regulating cardiomyocyte progenitor and maturation gene programs, linking it to cardiac function and genetic variation.

Single-molecule simultaneous profiling of DNA methylation and DNA-protein interactions with Nanopore-DamID

This study introduces Nanopore-DamID, a method to detect DNA methylation and DNA-protein interactions, revealing methylation's role in transcription factor activity.

Spatially resolved transcriptome profiles of mammalian kidneys illustrate the molecular complexity of functional nephron segments, cell-to-cell interactions and genetic variants.

This study uses spatial transcriptomics to analyze human and mouse kidney tissues, identifying gene expression patterns, nephron segments, cell interactions, and genetic variants while preserving spatial context.

Comparative performance of the BGI and Illumina sequencing technology for single-cell RNA-sequencing

This study compares the performance of BGI and Illumina sequencing technologies for single-cell RNA-sequencing, finding that BGI outperforms Illumina in cell and gene detection but similar in gRNA detection.

Genotype-free demultiplexing of pooled single-cell RNA-Seq

scSplit demultiplexes pooled single-cell RNA-Seq samples using genetic differences inferred from the data, showing high accuracy and consistency with known truths.

ascend: R package for analysis of single cell RNA-seq data

ascend provides an R package for streamlined single-cell RNA-seq analysis, offering functions for filtering, normalization, clustering, and visualization.