Improved reconstruction of transcripts and coding sequences from RNA-seq data.

ABSTRACT: Annotation of genes and transcripts is a key prerequisite for understanding the information that is encoded in newly sequenced genomes. One source of information suited for this purpose is RNA-seq data mapped to the respective genome sequence. RNA-seq-based approaches for transcript reconstruction generate transcript models from these data by combining regions of contiguous coverage (exons) and split read mappings (introns). Understanding phenotypes as a consequence of proteins encoded in a genome further requires the annotation of coding sequences within transcript models. We present GeMoSeq, a novel approach for transcript reconstruction from RNA-seq data that combines combinatorial enumeration of candidate transcripts with heuristics for splitting candidate transcripts into regions of c

SUBMITTER: Grau J 

PROVIDER: S-EPMC12910111 | biostudies-literature | 2026 Feb

REPOSITORIES: biostudies-literature