ELLIPSIS: robust quantification of splicing in scRNA-seq.

ABSTRACT:

Motivation

Alternative splicing is a tightly regulated biological process, that due to its cell type specific behavior, calls for analysis at the single cell level. However, quantifying differential splicing in scRNA-seq is challenging due to low and uneven coverage. Hereto, we developed ELLIPSIS, a tool for robust quantification of splicing in scRNA-seq that leverages locally observed read coverage with conservation of flow and intra-cell type similarity properties. Additionally, it is also able to quantify splicing in novel splicing events, which is extremely important in cancer cells where lots of novel splicing events occur.

Results

Application of ELLIPSIS to simulated data proves that our method is able to robustly estimate Percent Spliced In values in simulated data, a

SUBMITTER: Van Hecke M 

PROVIDER: S-EPMC11878791 | biostudies-literature | 2025 Feb

REPOSITORIES: biostudies-literature