Chirag Nepal

This study maps DNA methylation changes in 12 organs/tissues of spaceflight mice, showing tissue-specific and reversible epigenetic modifications linked to metabolic and immune dysregulation.

This study shows prenatal e-cigarette exposure causes region- and cell type-specific metabolic and developmental changes in neonatal rat brains, linked to neurodevelopmental disease risk.

This study uses spatial transcriptomics on FFPE kidney biopsy tissues to identify distinct transcriptomic signatures for different types of kidney transplant rejections.

The paper provides comprehensive reference materials with genomic, epigenomic, transcriptomic, scRNA-seq, and proteomic characterizations of two cell lines for benchmarking and validation.

The paper identifies alternative promoters in cancer transcriptomes that are associated with epigenetic misregulation due to DNA methylation changes in CpG-depleted regions.

The paper creates a central repository for zebrafish developmental genomics data, identifies new cis-regulatory elements, and compares regulatory elements between zebrafish and mouse.

The paper identifies a conserved noncoding element in HOTAIR that functions both in cis and trans, regulating HOXC11 and HOXD11 expression.

The paper identifies dual-initiation promoters in zebrafish that use both canonical and non-canonical initiation motifs, showing differential regulation during development and conservation across species.