Praveen Sethupathy

MHC-I downregulation is associated with immune-evasion in breast cancers with heterogeneous activation of epithelial-mesenchymal plasticity

The paper shows that in mixed E-qM breast tumors, qM cancer cells create immunosuppressive niches leading to MHC-I downregulation and immune evasion.

Aberrant miR-29 is a predictive feature of severe phenotypes in pediatric Crohn's disease

The paper identifies miR-29 as a predictive marker for severe phenotypes in pediatric Crohn's disease through miRNA analysis and validation in mice and human patients.

Integrative genome-scale analyses reveal post-transcriptional signatures of early human smallintestinal development in a directed differentiation organoid model

The paper identifies post-transcriptional regulators in early human small intestinal development using multi-omic analyses and presents a web tool for exploring miRNA regulation.

In situ polyadenylation enables spatial mapping of the total transcriptome

This paper introduces a method to spatially map the total transcriptome by enabling detection of non-polyadenylated RNAs through in situ polyadenylation.

Single-cell analysis of colonic epithelium reveals unexpected shifts in cellular composition and molecular phenotype in treatment-naiïve adult Crohn's disease

The paper uses single-cell analysis to compare colonic epithelial cells in Crohn's disease and control patients, revealing shifts in cell composition and gene expression patterns.

Single Cell Analysis Reveals Multi-faceted miR-375 Regulation of the Intestinal Crypt

This study identifies miR-375 as a key regulator of intestinal crypt homeostasis, showing its role in stem cell proliferation, tuft cell abundance, and resistance to infection and cancer.

Colonic Epithelial miR-31 Associates with the Development of Crohn’s Phenotypes

This study identifies miR-31 as a marker that stratifies Crohn’s disease patients into two subtypes with distinct clinical outcomes.

Bioinformatic analysis of endogenous and exogenous small RNAs on lipoproteins

The paper introduces TIGER, a pipeline for analyzing extracellular small RNAs, demonstrating its ability to identify sRNAs on lipoproteins and in biofluids with high accuracy.

Functional transcriptomics in diverse intestinal epithelial cell types reveals robust gut microbial sensitivity of microRNAs in intestinal stem cells

The paper shows microbiota regulate miRNA expression in intestinal stem cells more than other cell types, with miR-375 suppression linked to increased stem cell proliferation.