Jennifer Y. Tan

SMEW provides a code-free, interactive platform for analyzing spatial metabolomics data across multiple scales and conditions to identify metabolic patterns and biological pathways.

The paper introduces MAGPIE, a framework for integrating spatial transcriptomics, metabolomics, and tissue morphology data, demonstrating its application in studying drug-induced pulmonary fibrosis.

This study develops a multi-omics framework to identify biomarkers of inhaled drug-induced lung toxicity using spatial transcriptomics, proteomics, and histopathological data.

The paper investigates whether splicing of enhancer-associated long noncoding RNAs (elncRNAs) directly impacts enhancer function or is a consequence of enhancer activity, finding that splicing is associated with changes in chromatin signatures and target gene expression.

The paper shows that translation is required for miRNA-dependent transcript decay, as non-translated lncRNAs are minimally affected by miRNA loss, while translated transcripts are destabilized.

This study shows TIP5 maintains genome compartmentalization in ground-state pluripotent stem cells by preventing active chromatin from invading repressive domains.

The paper identifies miRNA targets using an unbiased statistical approach and finds that noncanonical targeting contributes significantly to miRNA regulation.

This study investigates whether CAG/CTG repeat expansion alters chromatin folding using 4C sequencing and finds that chromatin contacts remain stable despite repeat expansion.

The paper identifies cell cycle-associated lincRNAs in mouse embryonic stem cells and shows their role in cell cycle regulation and pluripotency maintenance.

The paper shows that elincRNA splicing is common and directly impacts enhancer function through cis-regulation.