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   Articles with "rna small" as a keyword



NMR characterization of RNA small molecule interactions.

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recommendations! Published in 2019 at "Methods"

DOI: 10.1016/j.ymeth.2019.05.015

Abstract: Exciting discoveries of naturally occurring ligand-sensing and disease-linked noncoding RNAs have promoted significant interests in understanding RNA-small molecule interactions. NMR spectroscopy is a powerful tool for characterizing intermolecular interactions. In this review, we describe protocols… read more here.

Keywords: small molecule; rna small; spectroscopy; molecule interactions ... See more keywords

Fluorescence-based investigations of RNA-small molecule interactions.

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recommendations! Published in 2019 at "Methods"

DOI: 10.1016/j.ymeth.2019.05.017

Abstract: Interrogating non-coding RNA structures and functions with small molecules is an area of rapidly increasing interest among biochemists and chemical biologists. However, many biochemical approaches to monitoring RNA structures are time-consuming and low-throughput, and thereby… read more here.

Keywords: molecule; fluorescence based; small molecule; rna small ... See more keywords

AffiGrapher: Contrastive Heterogeneous Graph Learning with Aromatic Virtual Nodes for RNA-Small Molecule Binding Affinity Prediction

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recommendations! Published in 2025 at "Journal of chemical information and modeling"

DOI: 10.1021/acs.jcim.5c00798

Abstract: RNA molecules exhibit diverse structures and functions, making them promising drug targets. However, predicting RNA-small molecule binding affinity remains challenging due to limited experimental data and the structural variability introduced by multiple RNA conformations. To… read more here.

Keywords: binding affinity; rna small; affinity; prediction ... See more keywords

Explainable RNA-Small Molecule Binding Affinity Prediction Based on Multiview Enhancement Learning

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recommendations! Published in 2025 at "Journal of chemical information and modeling"

DOI: 10.1021/acs.jcim.5c01064

Abstract: RNA has the potential to serve as a drug target, requiring RNA-small molecule binding affinity to screen potential drugs generally. However, accurately predicting RNA-small molecule binding affinity remains a highly challenging task. This study proposes… read more here.

Keywords: rna small; binding affinity; molecule binding; small molecule ... See more keywords

Advances and Challenges in Machine Learning for RNA-Small Molecule Interaction Modeling: Review.

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recommendations! Published in 2025 at "Journal of chemical theory and computation"

DOI: 10.1021/acs.jctc.5c00973

Abstract: RNA plays a pivotal role in biological processes such as gene expression regulation and protein synthesis. Targeting RNA with small molecules offers a novel therapeutic strategy for various diseases by directly modulating these processes. However,… read more here.

Keywords: rna small; molecule interaction; small molecule; machine learning ... See more keywords

RNA-Small-Molecule Interaction: Challenging the "Undruggable" Tag.

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recommendations! Published in 2024 at "Journal of medicinal chemistry"

DOI: 10.1021/acs.jmedchem.3c01354

Abstract: RNA targeting, specifically with small molecules, is a relatively new and rapidly emerging avenue with the promise to expand the target space in the drug discovery field. From being "disregarded" as an "undruggable" messenger molecule… read more here.

Keywords: interaction challenging; molecule; molecule interaction; rna small ... See more keywords

Strategies for targeting RNA with small molecule drugs

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recommendations! Published in 2022 at "Expert Opinion on Drug Discovery"

DOI: 10.1080/17460441.2022.2111414

Abstract: ABSTRACT Introduction Historically, therapeutic treatment of disease has been restricted to targeting proteins. Of the approximately 20,000 translated human proteins, approximately 1600 are associated with diseases. Strikingly, less than 15% of disease-associated proteins are predicted… read more here.

Keywords: small molecule; targeting rna; molecule; molecule drugs ... See more keywords

Long non-coding RNA-small nucleolar RNA host gene 7 regulates inflammatory responses following spinal cord injury by regulating the microRNA-449a/TNF-α-induced protein 3-interacting protein 2 axis

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recommendations! Published in 2022 at "Bioengineered"

DOI: 10.1080/21655979.2022.2061294

Abstract: ABSTRACT The current study aimed to explore the anti-inflammatory effects of long non-coding RNA-small nucleolar RNA host gene 7 (lncRNA-SNHG7) and its mechanism in spinal cord injury (SCI) models. SCI models were established both in… read more here.

Keywords: long non; lncrna snhg7; rna small; injury ... See more keywords

MVRBind: multi-view learning for RNA-small molecule binding site prediction

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recommendations! Published in 2025 at "Briefings in Bioinformatics"

DOI: 10.1093/bib/bbaf489

Abstract: Abstract RNA plays a critical role in cellular processes, and its dysregulation is linked to many diseases, positioning RNA-targeted drugs as an important area of research. Accurate prediction of RNA-small molecule binding sites is crucial… read more here.

Keywords: rna small; molecule binding; binding sites; small molecule ... See more keywords

DeepRSMA: a cross-fusion-based deep learning method for RNA–small molecule binding affinity prediction

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recommendations! Published in 2024 at "Bioinformatics"

DOI: 10.1093/bioinformatics/btae678

Abstract: Abstract Motivation RNA is implicated in numerous aberrant cellular functions and disease progressions, highlighting the crucial importance of RNA-targeted drugs. To accelerate the discovery of such drugs, it is essential to develop an effective computational… read more here.

Keywords: rna small; deep learning; cross fusion; small molecule ... See more keywords

RNA language model and graph attention network for RNA and small molecule binding sites prediction

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recommendations! Published in 2025 at "Bioinformatics"

DOI: 10.1093/bioinformatics/btaf447

Abstract: Abstract Motivation The structural complexities enable RNA to serve as a versatile molecular scaffold capable of binding small molecules with high specificity. Understanding these interactions is essential for elucidating RNA’s role in disease mechanisms and… read more here.

Keywords: molecule binding; rna small; language; binding sites ... See more keywords