NMDtxDB: Data-driven identification and annotation of human NMD target transcripts

Abstract excerpt

The nonsense-mediated RNA decay (NMD) pathway is a crucial mechanism of mRNA quality control. Current annotations of NMD substrate RNAs are rarely data-driven, but use general established rules. We introduce a dataset with 4 cell lines and combinations for SMG5, SMG6 and SMG7 knockdowns or SMG7 knockout. Based on this dataset, we implemented a workflow that combines Nanopore and Illumina sequencing to assemble a t...

Topics

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• 5' Untranslated Regions
• DEAD-box RNA Helicases
• HEK293 Cells
• Mutation
• Protein Biosynthesis
• RNA, Messenger
• RNA, Ribosomal
• RNA, Small Interfering

Identifiers and source

Literature Corpus work

a3e419b6-51b9-5a7f-ac52-079000b4c265

DOI

10.1101/2024.01.31.578146