2026· Methods in molecular biology· Vol 3047, pp.
15-27
· 0 citations
Medicine
TL;DR
Two complementary methods for tsRNA validation are presented, small RNA northern blotting, which allows direct visualization of RNA size and abundance, and dumbbell PCR, which enables isoform-specific quantification with single-nucleotide resolution, which provide robust tools to validate tsRNA expression and facilitate mechanistic studies of their biological functions.
Current strategies for detecting and mapping RNA modifications in the small RNome include demodification-based sequencing approaches for heavily modified RNAs, targeted chemical and enzymatic methods for site-specific mapping, and emerging direct RNA sequencing technologies that allow analysis of native molecules witho...
Bennett Henzeler, Kathrin Halter, Özge Simsir et al.· Biological chemistry· 0 citations
This chapter presents RNA Antisense Purification-RNA coupled to psoralen crosslinking (RAP-RNA[AMT]), a targeted method to capture direct RNA-RNA base-paired partners of a chosen lncRNA in its native cellular context.
Sylvia L. R. Wood, Bridget Flowers, Jong-Sun Lee· Methods in molecular biology· 0 citations
Abstract High-throughput sequencing (HTS) technologies have transformed life sciences by enabling rapid, large-scale analysis of nucleic acids, providing unprecedented insights into genomics and transcriptomics. Accurate determination of RNA termini remains, however, a major challenge. We have addressed this limitation...
D. Knierim, P. Margaria· Journal of General Virology· 0 citations
The preparation and analysis of standard, miRNA-enriched libraries that contain 5'-monophosphorylated RNAs and 3'-hydroxyl ends are described, as well as a custom protocol for the analysis of sRNAs containing 5'-cap modifications.
V. Silva, Srikrishna Kandooru, Damien Parrello et al.· Methods in molecular biology· 0 citations
Quantification of tRNA aminoacylation has been used to demonstrate RNA chaperone activity for RNA-binding proteins that promote tRNA folding to increase the fraction of aminoacylated tRNAs, underscoring the utility of this assay in interrogating RNA chaperone-assisted tRNA folding and function.
Jennifer Porat, Christopher P. Watkins, Mark A. Bayfield· Methods in molecular biology· 0 citations
Transfer RNAs (tRNAs) are key molecules that deliver amino acids to the translating ribosome according to their cognate codon encoded in messenger RNA (mRNA). Due to the modified nature of tRNA nucleotides, accurate tRNA quantification can be tedious, especially when dealing with small sample inputs. Here, we took adva...
É. Teyssonnière, M. Mito, Yuichi Shichino et al.· bioRxiv· 0 citations
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