Challenges in identifying mRNA transcript starts and ends from long-read sequencing data.

ABSTRACT: Long-read sequencing (LRS) technologies have the potential to revolutionize scientific discoveries in RNA biology, especially by enabling the comprehensive identification and quantification of full length mRNA isoforms. However, inherently high error rates make the analysis of long-read sequencing data challenging. While these error rates have been characterized for sequence and splice site identification, it is still unclear how accurately LRS reads represent transcript start and end sites. Here, we systematically assess the variability and accuracy of mRNA terminal ends identified by LRS reads across multiple sequencing platforms. We find substantial inconsistencies in both the start and end coordinates of LRS reads spanning a gene, such that LRS reads often fail to accurately recapitula

SUBMITTER: Calvo-Roitberg E 

PROVIDER: S-EPMC10402045 | biostudies-literature | 2023 Jul

REPOSITORIES: biostudies-literature