AIMC Topic: Protein Interaction Mapping

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MESM: integrating multi-source data for high-accuracy protein-protein interactions prediction through multimodal language models.

BMC biology Aug 11, 2025
BACKGROUND: Protein-protein interactions (PPIs) play a critical role in essential biological processes such as signal transduction, enzyme activity regulation, cytoskeletal structure, immune responses, and gene regulation. However, current methods ma...
Humans Neural Networks, Computer Databases, Protein Saccharomyces cerevisiae Protein Interaction Mapping Deep Learning Protein Interaction Maps
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Prediction of protein-protein interaction based on interaction-specific learning and hierarchical information.

BMC biology Aug 4, 2025
BACKGROUND: Prediction of protein-protein interactions (PPIs) is fundamental for identifying drug targets and understanding cellular processes. The rapid growth of PPI studies necessitates the development of efficient and accurate tools for automated...
Computational Biology Protein Interaction Mapping Deep Learning
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MultiRepPI: a cross-modal feature fusion-based multiple characterization framework for plant peptide-protein interaction prediction.

BMC plant biology Jul 19, 2025
Plant peptide-protein interactions (PepPI) play a crucial role in plant growth, development, immune regulation, and environmental adaptation. However, existing computational methods still face several challenges in PepPI prediction. First, most metho...
Computational Biology Plant Proteins Neural Networks, Computer Peptides Protein Interaction Mapping
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Analysis of Protein-Protein Interactions in CC125 by Co-Fractionation Mass Spectrometry.

Journal of proteome research Jul 11, 2025
, a unicellular eukaryotic green alga, is an important biological model. Previous studies on protein complexes in have primarily focused on photosynthesis and ciliary movement, while understanding the overall protein complex network is still limited...
Mass Spectrometry Plant Proteins Photosynthesis Chlamydomonas reinhardtii Protein Interaction Mapping Protein Interaction Maps Proteomics
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Exploring Protein-Protein Docking Tools: Comprehensive Insights into Traditional and Deep-Learning Approaches.

Journal of chemical information and modeling Jul 2, 2025
Protein-protein interactions are crucial for numerous biological activities such as signaling, enzyme catalysis, gene expression regulation, cell adhesion, immune response, and drug action. Structural characterization of these interactions can elucid...
Proteins Humans Protein Interaction Mapping Deep Learning Protein Binding Molecular Docking Simulation
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Explainability of Protein Deep Learning Models.

International journal of molecular sciences May 29, 2025
Protein embeddings are the new main source of information about proteins, producing state-of-the-art solutions to many problems, including protein interaction prediction, a fundamental issue in proteomics. Understanding the embeddings and what causes...
Hydrophobic and Hydrophilic Interactions Computational Biology Proteomics Deep Learning Protein Interaction Mapping Proteins
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Predicting protein-protein interaction with interpretable bilinear attention network.

Computer methods and programs in biomedicine Mar 30, 2025
BACKGROUND AND OBJECTIVE: Protein-protein interactions (PPIs) play the key roles in myriad biological processes, helping to understand the protein function and disease pathology. Identification of PPIs and their interaction types through wet experime...
Algorithms Deep Learning Computational Biology Sequence Analysis, Protein Protein Conformation Proteins Databases, Protein Humans Protein Binding Protein Interaction Mapping Amino Acid Sequence Neural Networks, Computer
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PlantPathoPPI: An Ensemble-based Machine Learning Architecture for Prediction of Protein-Protein Interactions between Plants and Pathogens.

Journal of molecular biology Mar 17, 2025
This study aimed to develop a machine learning-based tool for predicting protein-protein interactions (PPIs) between plant-pathogen systems, addressing the challenges of experimental PPI identification. Identifying PPIs in plant-pathogen interactions...
Machine Learning Software Algorithms Neural Networks, Computer Plant Diseases Plant Proteins Protein Interaction Mapping Host-Pathogen Interactions Support Vector Machine Protein Interaction Maps Plants Computational Biology
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SEGT-GO: a graph transformer method based on PPI serialization and explanatory artificial intelligence for protein function prediction.

BMC bioinformatics Feb 10, 2025
BACKGROUND: A massive amount of protein sequences have been obtained, but their functions remain challenging to discern. In recent research on protein function prediction, Protein-Protein Interaction (PPI) Networks have played a crucial role. Uncover...
Proteins Artificial Intelligence Databases, Protein Algorithms Protein Interaction Maps Protein Interaction Mapping Computational Biology
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Deep learning methods for proteome-scale interaction prediction.

Current opinion in structural biology Jan 22, 2025
Proteome-scale interaction prediction is essential for understanding protein functions and disease mechanisms. Traditional experimental methods are often limited by scale and complexity, driving the need for computational approaches. Deep learning ha...
Proteome Protein Binding Proteins Humans Protein Interaction Mapping Computational Biology Deep Learning
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