Saumya Agrawal

The paper shows enhancers are usually unidirectionally transcribed in a cell type but may appear bidirectional when aggregated across cell types, suggesting enhancer RNAs are functional.

The paper performs knockdown of 200 lncRNAs in human iPS cells, identifies 36 with growth inhibition, and finds molecular phenotypes in 29.3% of cases, with higher agreement in molecular than cell growth phenotypes across cell types.

The paper identifies cis-interacting lncRNAs and their targets using RNA-chromatin and Hi-C data across 18 human cell types.

The paper functionally annotates human long non-coding RNAs by systematically knocking down 285 lncRNAs and analyzing molecular phenotypes using CAGE sequencing.

RADICL-seq maps genome-wide RNA-chromatin interactions in intact nuclei, revealing general and cell type-specific patterns of transcript occupancy and the role of transcription in chromatin structure.

The paper identifies conserved regions in the human rDNA intergenic spacer using phylogenetic footprinting and integrates them with functional genomics data to suggest their potential roles in transcription and chromatin regulation.