SynthesisNucleic acids research2021
Computational meta-analysis of ribosomal RNA fragments: potential targets and interaction mechanisms.
Synthesis in Nucleic acids research, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
32 citing papers in PubMed, 47 citations in OpenAlex.
- Impact of interspecies colostrum and milk replacement on circulating sncRNA dynamics of neonatal goat kids.RNA biology · 2026Article
- Role of small intronic RNAs in the crosstalk between immune cells and β-cells during type 1 diabetes development.RNA biology · 2026Article
- Function and mechanism of double-stranded RNA-binding protein 1 in small RNA metabolism in tomato.The Plant journal : for cell and molecular biology · 2026Article
- Breed-specific divergence in boar sperm regulatory profiles involves piRNA and mitochondrial small RNAs.Cellular and molecular life sciences : CMLS · 2026Article
- Comparative Transcriptomics Reveals an Extracellular Worm Argonaute as an Ancestral Regulator of LTR Retrotransposons.Genome biology and evolution · 2026Article
- PCsRNAdb: a comprehensive resource of small noncoding RNAs across cancers.Nucleic acids research · 2026Article
- Nanopore based RNA methylation profiling of a circulating lung cancer biomarker.Communications medicine · 2025Article
- Screening for non-invasive rsRNA biomarkers to assess embryo quality utilizing ultra-sensitive pandora sequencing combined with machine learning.Journal of assisted reproduction and genetics · 2025Article
- FUSION: a family-level integration approach for robust differential analysis of small non-coding RNAs.Bioinformatics (Oxford, England) · 2025Article
- Protein Functional Effector (pfe) Noncoding RNAS Are Identical to Fragments from Various Noncoding RNAs.International journal of molecular sciences · 2025Article
- Chasing non-existent "microRNAs" in cancer.Oncogenesis · 2025Article
- rRFtargetDB: a database of Ago1-mediated targets of ribosomal RNA fragments.RNA (New York, N.Y.) · 2025Article
- Overview of the Different Classes of Small RNAs During B-Cell Development.Methods in molecular biology (Clifton, N.J.) · 2025Review
- The subcellular distribution of miRNA isoforms, tRNA-derived fragments, and rRNA-derived fragments depends on nucleotide sequence and cell type.BMC biology · 2024Article
- Comprehensive profiling of rRNA-derived small RNAs inMethodsX · 2024Article
- MINRbase: a comprehensive database of nuclear- and mitochondrial-ribosomal-RNA-derived fragments (rRFs).Nucleic acids research · 2024Article
- tRNA, yRNA, and rRNA fragment excisions do not involve canonical microRNA biogenesis machinery.microPublication biology · 2024Article
- 28S rRNA-Derived Fragments Represent an Independent Molecular Predictor of Short-Term Relapse in Prostate Cancer.International journal of molecular sciences · 2023Article
- Analysis of chimeric reads characterises the diverse targetome of AGO2-mediated regulation.Scientific reports · 2023Article
- sRNAfrag: a pipeline and suite of tools to analyze fragmentation in small RNA sequencing data.Briefings in bioinformatics · 2023Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
The most abundant cellular RNA species, ribosomal RNA (rRNA), appears to be a source of massive amounts of non-randomly generated fragments. We found rRNA fragments (rRFs) in immunoprecipitated Argonaute (Ago-IP) complexes in human and mouse cells and in small RNA sequencing datasets. In human Ago1-IP, guanine-rich rRFs were preferentially cut in single-stranded regions of mature rRNAs between pyrimidines and adenosine, and non-randomly paired with cellular transcripts in crosslinked chimeras. Numerous identical rRFs were found in the cytoplasm and nucleus in mouse Ago2-IP. We report specific interaction motifs enriched in rRF-target pairs. Locations of such motifs on rRFs were compatible with the Ago structural features and patterns of the Ago-RNA crosslinking in both species. Strikingly, many of these motifs may bind to double-stranded regions on target RNAs, suggesting a potential pathway for regulating translation by unwinding mRNAs. Occurring on either end of rRFs and matching intronic, untranslated or coding regions in targets, such interaction sites extend the concept of microRNA seed regions. Targeting both borders of certain short introns, rRFs may be involved in their biogenesis or function, facilitated by Ago. Frequently dismissed as noise, rRFs are poised to greatly enrich the known functional spectrum of small RNA regulation.
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Registered trials
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 Socratic graph.