Milena Hasan

This paper introduces scReMeMber-Seq, a method to reconstruct single-cell trajectories by linking past and present transcriptomes using methylation-based memory recording.

CyFj11 enables importing FlowJo v11 workspaces into R and exporting R-based gates back to FlowJo, ensuring interoperability between gating tools and statistical analysis environments.

The paper identifies and functionally characterizes regulatory variants in DPP9 associated with severe COVID-19 by analyzing genetic risk factors and their impact on gene expression and immune cell function.

The paper identifies dysregulated dsRNA sensing and RNA viral exposure as potential triggers of type I interferon dysregulation in juvenile dermatomyositis onset.

The paper investigates strain translocation and enrichment of oral bacteria in the lower gastrointestinal tract of stunted children, finding increased oral bacteria in the duodenum and colon linked to biomass changes.

This study creates a spatial transcriptomic atlas of the developing mouse cochlea to identify gene expression gradients and cell-type specific signatures linked to cochlear function.

The paper investigates how rabies virus interacts with different human brain cell types, identifying a pro-viral astrocyte subpopulation that enhances viral transcription.

This study identifies IL-23's role in shaping the functional plasticity of human MAIT cells, revealing its impact on autoimmunity and cytotoxic functions through AP-1 transcription factors.

The paper identifies two TRM subpopulations in NSCLC patients and shows that only DP TRM predicts response to PD-1 blockade immunotherapy.

The paper identifies environmental and genetic factors influencing population differences in SARS-CoV-2 immune responses using single-cell RNA-sequencing data.

This study identifies factors influencing DNA methylation variation in human blood, showing that cytomegalovirus infection and aging drive methylation changes, with cellular composition and DNA sequence as key predictors.

The paper identifies novel genetic and non-genetic factors associated with plasma protein levels in healthy donors, highlighting their impact on immune response variability.

The paper investigates monocyte subset heterogeneity and its impact on influenza virus susceptibility across populations, revealing differences in transcriptional responses and infection resistance between African and European ancestry individuals.

SCHNAPPs is a Shiny-based tool for bench-scientists to analyze scRNA-seq data, offering quality control, clustering, differential expression, and visualization with reproducible reporting.