title: Chemical probe-based Nanopore Sequencing to Selectively Assess the RNA modifications
description: Current methods to identify RNA modifications with short-read sequencing are laborious and direct RNA sequencing gets proclaimed as the viable alternative. Herein, we harness the selective reactivity of the acrylonitrile towards the Inosine (I) and pseudouridine (Ψ) modifications and developed a chemical probe-based direct RNA sequencing method. We first demonstrated that the chemical probe-induced differential signature profile using nanopore sequencing could facilitate the selective assessment of I and Ψ in the in vitro synthesized RNA. Furthermore, we verified the I and Ψ modification with single-nucleotide resolution using RNA derived from mouse brain without the need for a null dataset using knockouts. Our chemical probe-based nanopore sequencing strategy can be extended to profile multiple RNA modifications on a single RNA and may facilitate the diagnosis of disease-associated epitranscriptome markers by generating a comparative dataset in clinical scenarios.
attributes.tag: ENA first public
attributes.value: 2022-02-28
attributes.tag: ENA last update
attributes.value: 2022-02-28
attributes.tag: External Id
attributes.value: SAMEA7804345
attributes.tag: INSDC center alias
attributes.value: KYOTO UNIVERSITY
attributes.tag: INSDC center name
attributes.value: KYOTO UNIVERSITY
attributes.tag: INSDC first public
attributes.value: 2022-02-28T00:29:35Z
attributes.tag: INSDC last update
attributes.value: 2022-02-28T00:29:35Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: Mouse forebrain mock treated, CE(-)
attributes.tag: common name
attributes.value: house mouse
attributes.tag: dev stage
attributes.value: 3 month old
attributes.tag: sample name
attributes.value: Mouse forebrain mock treated, CE(-)
attributes.tag: sex
attributes.value: male
attributes.tag: strain
attributes.value: ICR
attributes.tag: tissue type
attributes.value: forebrain