Shraddha Pai

Integration of human and mouse single-cell transcriptomes of the developing cerebellum nominates cells-of-origin for Group 3 and 4 medulloblastoma

The paper integrates human and mouse single-cell transcriptomes of the developing cerebellum to identify UBC subpopulations linked to Group 3 and 4 medulloblastoma.

Epigenomic landscape of the developing human rhombic lip reveals gene regulatory network and non-coding loci of developmental, evolutionary, and disease relevance

The paper identifies a gene regulatory network and non-coding loci in the human rhombic lip using epigenomic data, linking them to developmental, evolutionary, and disease processes.

BRCA1 is a molecular correlate of cell proliferation in human brain development and in Group 3 and 4 medulloblastoma

The paper shows BRCA1 correlates with proliferation in human neural progenitor cells and medulloblastoma, particularly in Group 3 and 4 tumors, and is linked to worse prognosis.

Multi-scale systems genomics analysis predicts pathways, cell types and drug targets involved in normative human cognition variation

The paper identifies a genetic variant in FBLN1 associated with nonverbal reasoning and links it to pathways, cell types, and diseases involved in cognition.

RCy3: Network Biology using Cytoscape from within R

RCy3 provides R access to Cytoscape's network biology tools, enabling reproducible workflows through automation and integration with existing packages.

netDx: Interpretable patient classification using integrated patient similarity networks

netDx is a supervised patient classification framework that integrates diverse data types and provides interpretable results, showing high performance in cancer survival prediction.

Differential DNA modification of an enhancer at the IGF2 locus affects dopamine synthesis in patients with major psychosis

The paper identifies reduced DNA modifications at an IGF2 enhancer in psychosis patients, linking it to disrupted dopamine synthesis in mice.