Transcriptome assembly at single-cell resolution with Beaver.

ABSTRACT:

Motivation

The established single-cell RNA sequencing (scRNA-seq) technologies has revolutionized biological and biomedical research by enabling the measurement of gene expression at single-cell resolution. However, the fundamental challenge of reconstructing full-length transcripts for individual cells remains unresolved. Existing single-sample assembly approaches cannot leverage shared information across cells while meta-assembly approaches often fail to strike a balance between consensus assembly and preserving cell-specific expression signatures.

Results

We present Beaver, a cell-specific transcript assembler designed for short-read scRNA-seq data. Beaver implements a transcript fragment graph to organize individual assemblies and designs an efficient dynamic programming

SUBMITTER: Shi Q 

PROVIDER: S-EPMC12261439 | biostudies-literature | 2025 Jul

REPOSITORIES: biostudies-literature