An ultra low-input method for global RNA structure probing uncovers Regnase-1-mediated regulation in macrophages
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Summary
SmartSHAPE is reported, a new RNA structure probing method that requires very low amounts of RNA input due to the largely reduced artefact of probing signals and increased efficiency of library construction that can greatly expand the scope of RNA structure-based investigations in practical biological systems.
- Type
- article
- Published
- 2021-12-01
- Cited by
- 11
- References
- 72
- Access
- Open access
- OpenAlex
- https://openalex.org/W4200500959
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:245604351
Keywords
RNA, Computational biology, Nucleic acid structure, Biology, RNA-binding protein
References
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- Structural imprints in vivo decode RNA regulatory mechanisms
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- Ly6C hi monocytes in the inflamed colon give rise to proinflammatory effector cells and migratory antigen-presenting cells.
- Sequencing of first-strand cDNA library reveals full-length transcriptomes
- RNA folding during transcription.
- Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo
- Single-stranded DNA library preparation for the sequencing of ancient or damaged DNA
- Maternal control of early mouse development
- The IκB kinase complex regulates the stability of cytokine-encoding mRNA induced by TLR–IL-1R by controlling degradation of regnase-1
- Post-transcriptional regulons coordinate the initiation and resolution of inflammation
- Cutadapt removes adapter sequences from high-throughput sequencing reads
- The role of RNA structure in regulating pre-mRNA splicing
- Genome-wide Measurement of RNA Secondary Structure in Yeast
- The 3D rRNA modification maps database: with interactive tools for ribosome analysis
Cited by
- Advances and opportunities in RNA structure experimental determination and computational modeling
- Structural RNA components supervise the sequential DNA cleavage in R2 retrotransposon
- Structural RNA components supervise the sequential DNA cleavage in R2 retrotransposon.
- RNA structure determination: From 2D to 3D
- In vivo structure probing of RNA in Archaea: novel insights into the ribosome structure of Methanosarcina acetivorans
- RNA structure: implications in viral infections and neurodegenerative diseases
- AStruct: detection of allele-specific RNA secondary structure in structuromic probing data
- TAS-seq enables subcellular single-stranded adenosine profiling by signal peptide-assisted adenosine deamination
- Recent Advances in Chemical Probing Strategies for RNA Structure Determination In Vivo
- Trained immunity in respiratory diseases: Mechanisms of action and intervention strategies
- In vivo structure probing of RNA in Archaea : Novel insights into the ribosome structure of Methanosarcina acetivorans
- Additional file 1 of AStruct: detection of allele-specific RNA secondary structure in structuromic probing data
- Additional file 1 of AStruct: detection of allele-specific RNA secondary structure in structuromic probing data
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