Systematic evaluation of single-cell RNA-seq analyses performance based on long-read sequencing platforms.

ABSTRACT:

Introduction

The rapid development of next-generation sequencing (NGS)-based single-cell RNA sequencing (scRNA-seq) allows for detecting and quantifying gene expression in a high-throughput manner, providing a powerful tool for comprehensively understanding cellular function in various biological processes. However, the NGS-based scRNA-seq only quantifies gene expression and cannot reveal the exact transcript structures (isoforms) of each gene due to the limited read length. On the other hand, the long read length of third-generation sequencing (TGS) technologies, including Oxford Nanopore Technologies (ONT) and Pacific Biosciences (PacBio), enable direct reading of intact cDNA molecules.

Objectives

Both ONT and PacBio have been used in conjunction with scRNA-seq, but their

SUBMITTER: Deng E 

PROVIDER: S-EPMC12126699 | biostudies-literature | 2025 May

REPOSITORIES: biostudies-literature