Naveen Ramalingam

The paper introduces unCTC, an R package for unbiased identification and characterization of CTCs from scRNA-Seq data, validated on breast CTCs.

ROSeq provides a robust differential expression analysis method for scRNA-seq data by modeling expression ranks, showing improved noise tolerance and scalability.

The paper analyzes single-cell expression profiles of circulating tumor cells (CTCs) across cancers, identifies EMT-related patterns, and develops a classifier to recognize CTCs using PBMC transcriptomes.

C1 CAGE detects transcription start sites and enhancer activity in lung cancer cells, revealing subpopulations with distinct responses to TGF-β and enhancer RNA dynamics.