An Iterative Approach to Polish the Nanopore Sequencing Basecalling for Therapeutic RNA Quality Control
Year: 2024
Type: preprint
Abstract: ABSTRACT Nucleotide modifications deviate nanopore sequencing readouts, therefore generating artifacts during the basecalling of sequence backbones. Here, we present an iterative approach to polish modification-disturbed basecalling results. We show such an approach is able to promote the basecalling accuracy of both artificially-synthesized and real-world molecules. With demonstrated efficacy and reliability, we exploit the approach to precisely basecall therapeutic RNAs consisting of artificial or natural modifications, as the basis for quantifying the purity and integrity of vaccine mRNAs which are transcribed in vitro , and for determining modification hotspots of novel therapeutic RNA interference (RNAi) molecules which are bioengineered (BioRNA) in vivo .
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: green
Funders: National Institutes of Health, Health Sciences, University of Arizona, National Heart, Lung, and Blood Institute, National Cancer Institute, National Institute of General Medical Sciences, National Institute of Allergy and Infectious Diseases, National Institute of Diabetes and Digestive and Kidney Diseases
Awards: G1036314796, G1169643504, G172141606, G5740599343, G5750421790, G9000076897, G9000270731, Recombinant microRNAs in xenobiotic metabolism and disposition, Novel bioengineered microRNA therapeutics for lung cancer, Cancer Center Support Grant P30, Training Program in Pharmacology, Novel biologic RNA molecules to modulate HCC metabolism
OpenAlex ID: W4402596296