Shivanthan Shanthikumar

This study shows that ambient RNA correction can reduce doublet detection accuracy and recommends detecting doublets before correction, except when using CellBender.

The paper uses single-cell CRISPR activation screens in human B cells to link non-coding autoimmune risk loci to their cis-regulatory target genes, revealing shared genetic mechanisms across diseases.

The paper shows that glycan-specific B cells undergo class-switching and diversification in germinal centers with age and infection, influencing vaccine design.

This study develops an iPSC-derived air-liquid interface platform to study AT2-macrophage interactions in homeostasis, infection, and repair, revealing their roles in antiviral immunity and epithelial repair.

This study benchmarks seven HTO demultiplexing tools using datasets with genetic variant-based ground truth, finding similar performance on high-quality data but poor performance on lower quality data for bimodal distribution methods.

The paper uses scRNA-seq and flow cytometry to identify novel immune and epithelial cell populations in preschool CF patients' bronchoalveolar lavage.