ArticleNature protocols2015
Transcriptome-wide identification of adenosine-to-inosine editing using the ICE-seq method.
Article in Nature protocols, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
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Who cites it
45 citing papers in PubMed, 84 citations in OpenAlex.
- Accelerate the Highly Efficient Development of mRNA Vaccines Through Advanced Computational Methods.MedComm · 2026Review
- ENDONUCLEASE V: FROM TRANSCRIPTOME REGULATOR TO CHEMICAL BIOLOGY TOOL.ChemistryEurope · 2026Article
- Review
- Post-Transcriptional Modifications of the Large Ribosome Subunit Assembly Intermediates inBiochemistry · 2025Article
- Mild and ultrafast GLORI enables absolute quantification of mNature methods · 2025Article
- Native RNA nanopore sequencing reveals antibiotic-induced loss of rRNA modifications in the A- and P-sites.Nature communications · 2024Article
- Absolute quantitative and base-resolution sequencing reveals comprehensive landscape of pseudouridine across the human transcriptome.Nature methods · 2024Article
- Navigating the landscape of epitranscriptomics and host immunity.Genome research · 2024Review
- Quantitative profiling of pseudouridylation landscape in the human transcriptome.Nature chemical biology · 2023Article
- Concepts and methods for transcriptome-wide prediction of chemical messenger RNA modifications with machine learning.Briefings in bioinformatics · 2023Review
- Article
- NAdvances in experimental medicine and biology · 2023Article
- Recent Advances of RNA mCancer treatment and research · 2023Article
- Evaluation and development of deep neural networks for RNA 5-Methyluridine classifications using autoBioSeqpy.Frontiers in microbiology · 2023Article
- Review
- Quantification of synthetic errors during chemical synthesis of DNA and its suppression by non-canonical nucleosides.Scientific reports · 2022Article
- Epitranscriptomic mapping of RNA modifications at single-nucleotide resolution using rhodamine sequencing (Rho-seq).STAR protocols · 2022Article
- High-throughput screening to identify potential inhibitors of the Zα domain of the adenosine deaminase 1 (ADAR1).Saudi journal of biological sciences · 2021Article
- Recent technical advances in the study of nucleic acid modifications.Molecular cell · 2021Review
- The occurrence order and cross-talk of different tRNA modifications.Science China. Life sciences · 2021Review
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Inosine (I), a modified base found in the double-stranded regions of RNA in metazoans, has various roles in biological processes by modulating gene expression. Inosine is generated from adenosine (A) catalyzed by ADAR (adenosine deaminase acting on RNA) enzymes in a process called A-to-I RNA editing. As inosine is converted to guanosine (G) by reverse transcription, the editing sites can be identified by simply comparing cDNA sequences with the corresponding genomic sequence. One approach to screening I sites is by deep sequencing based on A-to-G conversion from genomic sequence to cDNA; however, this approach produces a high rate of false positives because it cannot efficiently eliminate G signals arising from inevitable mapping errors. To address this issue, we developed a biochemical method to identify inosines called inosine chemical erasing (ICE), which is based on cyanoethylation combined with reverse transcription. ICE was subsequently combined with deep sequencing (ICE-seq) for the reliable identification of transcriptome-wide A-to-I editing sites. Here we describe a protocol for the practical application of ICE-seq, which can be completed within 22 d, and which allows the accurate identification of transcriptome-wide A-to-I RNA editing sites.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.