ArticleCell reports2013
Discovering RNA-protein interactome by using chemical context profiling of the RNA-protein interface.
Article in Cell reports, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 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
23 citing papers in PubMed.
- Differentiation of RNA-protein docking structures through molecular dynamics simulation and machine learning methods.Briefings in bioinformatics · 2026Article
- Structural-guided identification of two modulators of β-1,3-glucan synthase FKS1.Nature communications · 2025Article
- Advances and Challenges in Scoring Functions for RNA-Protein Complex Structure Prediction.Biomolecules · 2024Review
- RNA: The Unsuspected Conductor in the Orchestra of Macromolecular Crowding.Chemical reviews · 2024Review
- tRNA renovatio: Rebirth through fragmentation.Molecular cell · 2023Review
- Review
- Noncanonical Roles of tRNAs: tRNA Fragments and Beyond.Annual review of genetics · 2020Review
- Analysis of genomic tRNA revealed presence of novel genomic features in cyanobacterial tRNA.Saudi journal of biological sciences · 2020Article
- Scoring Functions for Protein-RNA Complex Structure Prediction: Advances, Applications, and Future Directions.Communications in information and systems · 2020Article
- Role of host tRNAs and aminoacyl-tRNA synthetases in retroviral replication.The Journal of biological chemistry · 2019Review
- Microbiome characterization by high-throughput transfer RNA sequencing and modification analysis.Nature communications · 2018Article
- Modifications and functional genomics of human transfer RNA.Cell research · 2018Review
- Hili Inhibits HIV Replication in Activated T Cells.Journal of virology · 2017Article
- Determining the fidelity of tRNA aminoacylation via microarrays.Methods (San Diego, Calif.) · 2017Article
- tRNA base methylation identification and quantification via high-throughput sequencing.RNA (New York, N.Y.) · 2016Article
- Interaction of tRNA with MEK2 in pancreatic cancer cells.Scientific reports · 2016Article
- Non-random distribution of homo-repeats: links with biological functions and human diseases.Scientific reports · 2016Article
- Small Non-coding Transfer RNA-Derived RNA Fragments (tRFs): Their Biogenesis, Function and Implication in Human Diseases.Genomics & informatics · 2015Review
- Emerging roles of tRNA in adaptive translation, signalling dynamics and disease.Nature reviews. Genetics · 2015Review
- Four-leaf clover qRT-PCR: A convenient method for selective quantification of mature tRNA.RNA biology · 2015Article
Corrections and comments
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Authors and funding
9 authors.
Funding
Abstract
RNA-protein (RNP) interactions generally are required for RNA function. At least 5% of human genes code for RNA-binding proteins. Whereas many approaches can identify the RNA partners for a specific protein, finding the protein partners for a specific RNA is difficult. We present a machine-learning method that scores a protein's binding potential for an RNA structure by utilizing the chemical context profiles of the interface from known RNP structures. Our approach is applicable even when only a single RNP structure is available. We examined 801 mammalian proteins and find that 37 (4.6%) potentially bind transfer RNA (tRNA). Most are enzymes involved in cellular processes unrelated to translation and were not known to interact with RNA. We experimentally tested six positive and three negative predictions for tRNA binding in vivo, and all nine predictions were correct. Our computational approach provides a powerful complement to experiments in discovering new RNPs.
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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 OpenQuestion graph.