AIMC Topic: RNA-Binding Proteins

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PANTHER Score: Protein-Affinity for Nucleic Target-binding, Hybridization, and Energy Regression.

RNA (New York, N.Y.) Jan 16, 2026
Although protein-RNA interactions are crucial for many biological processes, predicting their binding free energies (ΔG) is a challenging task due to limited available experimental data and the complexity of these interactions. To address this issue,...
Machine Learning Protein Binding Nucleic Acid Hybridization Thermodynamics RNA-Binding Proteins Molecular Dynamics Simulation RNA
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Deep learning-assisted discovery of a potent and cell-active inhibitor of RNA N-methyladenosine recognition protein YTHDC2.

Nature communications Jan 6, 2026
YTHDC2, a unique YTH-domain-containing protein that recognizes N6-methyladenosine (mA) on RNA, plays critical roles in diverse pathological processes and represents a promising therapeutic target. Despite its potential, no potent small-molecule inhib...
RNA Helicases Drug Discovery Deep Learning RNA, Messenger Humans RNA-Binding Proteins RNA Adenosine
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Integrated m6A reader network in acute myeloid leukemia: prognostic modeling, immune modulation, and functional validation of YTHDF3.

International immunopharmacology Dec 4, 2025
Emerging evidence highlights RNA N6-methyladenosine (m6A) modifications as pivotal regulators of tumorigenesis, yet the synergistic roles of m6A readers in the pathogenesis and prognosis of acute myeloid leukemia (AML) remains unclear. By leveraging ...
Prognosis Adenosine Female Gene Expression Regulation, Leukemic Leukemia, Myeloid, Acute Humans RNA Splicing Factors Machine Learning Male RNA-Binding Proteins Cell Proliferation
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Multi-omics identification of RNASE6 as an immune regulatory RNA-binding protein associated with melanoma metastasis.

Autoimmunity Oct 7, 2025
BACKGROUND: Cutaneous melanoma is a highly invasive tumor. It enhances metastasis and resistance to immunotherapy immunosuppressive mechanisms. Understanding RNA-binding proteins (RBPs) in melanoma's immune alterations is limited. This study explore...
Ribonucleases RNA-Binding Proteins Gene Expression Regulation, Neoplastic Neoplasm Metastasis Cell Line, Tumor Gene Regulatory Networks Multiomics Humans Macrophages Melanoma Skin Neoplasms Biomarkers, Tumor
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A deep learning approach based on molecular graph features and residual blocks to predict interaction sites between CircRNA and RBP.

Biochemical and biophysical research communications Sep 16, 2025
CircRNAs are ubiquitously expressed across diverse tissues and cells, playing a pivotal role not only in protein-mediated biological processes but also in disease prevention and therapeutics. RNA-RBP interactions are critical for deciphering gene reg...
Humans Deep Learning RNA, Circular Computational Biology RNA-Binding Proteins Binding Sites
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Partner-RBR: Predicting Multitype RNA-Binding Residues Based on Mutual Learning.

Journal of chemical information and modeling Sep 16, 2025
RNA molecules play diverse and critical roles in various biological processes, including gene expression, post-transcriptional regulation, and disease pathogenesis. Understanding the interaction between proteins and RNA necessitates the precise ident...
Sequence Alignment Models, Molecular RNA Binding Sites Machine Learning Protein Binding Computational Biology RNA-Binding Proteins Databases, Protein
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Uncertainty Quantification and Temperature Scaling Calibration for Protein-RNA Binding Site Prediction.

Journal of chemical information and modeling Jun 2, 2025
The black-box nature of deep learning has increasingly drawn attention to the reliability and uncertainty of predictive models. Currently, several uncertainty quantification (UQ) methods have been proposed and successfully applied in the fields of mo...
Calibration Binding Sites Uncertainty Protein Binding Neural Networks, Computer RNA-Binding Proteins Temperature RNA
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PFHxA and PFHxS promote breast cancer progression in 3D culture: MEX3C-associated immune infiltration revealed by bioinformatics and machine learning.

Journal of hazardous materials May 2, 2025
Per- and polyfluoroalkyl substances (PFAS) are persistent environmental contaminants with widespread use and bioaccumulative potential. Short-chain PFAS such as perfluorohexanoic acid (PFHxA) and perfluorohexane sulfonate (PFHxS) have been introduced...
Humans Machine Learning Female Tumor Microenvironment Disease Progression Cell Line, Tumor Sulfonic Acids Cell Proliferation Cell Movement Computational Biology Fluorocarbons RNA-Binding Proteins Triple Negative Breast Neoplasms
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Artificial intelligence-assisted RNA-binding protein signature for prognostic stratification and therapeutic guidance in breast cancer.

Frontiers in immunology Apr 16, 2025
BACKGROUND: Breast cancer is the most common malignancy in women globally, with significant heterogeneity affecting prognosis and treatment. RNA-binding proteins play vital roles in tumor progression, yet their prognostic potential remains unclear. T...
Breast Neoplasms Humans Tumor Microenvironment Machine Learning RNA-Binding Proteins Biomarkers, Tumor Artificial Intelligence Gene Expression Profiling Prognosis Gene Expression Regulation, Neoplastic Transcriptome Female Single-Cell Analysis
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RPI-GGCN: Prediction of RNA-Protein Interaction Based on Interpretability Gated Graph Convolution Neural Network and Co-Regularized Variational Autoencoders.

IEEE transactions on neural networks and learning systems Apr 4, 2025
RNA-protein interactions (RPIs) play an important role in several fundamental cellular physiological processes, including cell motility, chromosome replication, transcription and translation, and signaling. Predicting RPI can guide the exploration of...
Neural Networks, Computer Algorithms Computational Biology Humans Autoencoder RNA-Binding Proteins Proteins RNA
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