{"doi":"10.1101/2020.05.19.105338","title":"Chemical probe-based Nanopore Sequencing to Selectively Assess the RNA modifications","abstract":"Abstract 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. Abstract Figure","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2020,"id":121031,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":8,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9554,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2020-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":559573,"name":"Vinodh J Sahayasheela","orcid":"0000-0001-8231-3286","position":1,"is_corresponding":false},{"id":559574,"name":"Zutao Yu","orcid":"0000-0003-1389-0818","position":2,"is_corresponding":false},{"id":559575,"name":"T. Hidaka","orcid":"0000-0002-5986-9590","position":3,"is_corresponding":false},{"id":559576,"name":"Li Cai","orcid":"0000-0003-3344-337X","position":4,"is_corresponding":false},{"id":559577,"name":"Hiroshi Sugiyama","orcid":"0000-0001-8923-5946","position":5,"is_corresponding":false},{"id":559578,"name":"Ganesh N. Pandian","orcid":"0000-0002-5531-1995","position":6,"is_corresponding":false},{"id":559572,"name":"Soundhar Ramasamy","orcid":"0000-0001-8077-8848","position":0,"is_corresponding":true}],"reference_count":49,"raw_metadata":null,"created_at":"2026-07-18T23:14:38.147936Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}