Yiming Qu

This paper introduces SPLISOSM, a framework for analyzing spatial transcriptomics data to detect isoform-level patterns, identifying spatially variable transcript diversity and regulatory relationships in mouse and human brain tissues.

SAMPL-seq identifies spatial hubs in the human gut microbiome by sampling micron-scale sub-communities and analyzing microbial co-occurrence across individuals and time.

This study compares the antibody evasion, ACE2 binding, and infectivity of SARS-CoV-2 BA.2.87.1 with EG.5.1 and JN.1, finding BA.2.87.1 has lower immune evasion and reduced infectivity.

CREaTor models cis-regulatory patterns using attention mechanisms and RNA-seq/ChIP-seq data, outperforming existing methods in predicting cCRE-gene interactions across cell types.