AIMC Topic: Computational Biology

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Predicting lncRNA-protein interactions using a hybrid deep learning model with dinucleotide-codon fusion feature encoding.

BMC genomics Dec 28, 2024
Long non-coding RNAs (lncRNAs) play crucial roles in numerous biological processes and are involved in complex human diseases through interactions with proteins. Accurate identification of lncRNA-protein interactions (LPI) can help elucidate the func...
Humans Deep Learning Computational Biology RNA, Long Noncoding Codon
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Interpretable machine learning-driven biomarker identification and validation for Alzheimer's disease.

Scientific reports Dec 28, 2024
Alzheimer's disease (AD) is a neurodegenerative disorder characterized by limited effective treatments, underscoring the critical need for early detection and diagnosis to improve intervention outcomes. This study integrates various bioinformatics me...
Alzheimer Disease Protein Interaction Maps Gene Regulatory Networks Computational Biology Gene Expression Profiling Humans Transcriptome Machine Learning Biomarkers
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Porter 6: Protein Secondary Structure Prediction by Leveraging Pre-Trained Language Models (PLMs).

International journal of molecular sciences Dec 27, 2024
Accurately predicting protein secondary structure (PSSP) is crucial for understanding protein function, which is foundational to advancements in drug development, disease treatment, and biotechnology. Researchers gain critical insights into protein f...
Natural Language Processing Software Deep Learning Computational Biology Protein Structure, Secondary Proteins Algorithms
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BiGM-lncLoc: Bi-level Multi-Graph Meta-Learning for Predicting Cell-Specific Long Noncoding RNAs Subcellular Localization.

Interdisciplinary sciences, computational life sciences Dec 26, 2024
The precise spatiotemporal expression of long noncoding RNAs (lncRNAs) plays a pivotal role in biological regulation, and aberrant expression of lncRNAs in different subcellular localizations has been intricately linked to the onset and progression o...
Computational Biology Cell Line RNA, Long Noncoding Machine Learning Cell Line, Tumor Humans Neural Networks, Computer
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Topology-based protein classification: A deep learning approach.

Biochemical and biophysical research communications Dec 24, 2024
Utilizing Artificial Intelligence (AI) in computational biology techniques could offer significant advantages in alleviating the growing workloads faced by structural biologists, especially with the emergence of big data. In this study, we employed D...
Protein Conformation Proteins Databases, Protein Neural Networks, Computer Deep Learning Computational Biology
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Identification of Multi-functional Therapeutic Peptides Based on Prototypical Supervised Contrastive Learning.

Interdisciplinary sciences, computational life sciences Dec 23, 2024
High-throughput sequencing has exponentially increased peptide sequences, necessitating a computational method to identify multi-functional therapeutic peptides (MFTP) from their sequences. However, existing computational methods are challenged by cl...
Peptides Computational Biology Supervised Machine Learning Humans Machine Learning Algorithms
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Integration of Graph Neural Networks and multi-omics analysis identify the predictive factor and key gene for immunotherapy response and prognosis of bladder cancer.

Journal of translational medicine Dec 23, 2024
OBJECTIVE: The evaluation of the efficacy of immunotherapy is of great value for the clinical treatment of bladder cancer. Graph Neural Networks (GNNs), pathway analysis and multi-omics analysis have shown great potential in the field of cancer diagn...
Humans Proteasome Endopeptidase Complex Neural Networks, Computer Prognosis Reproducibility of Results Tumor Microenvironment Gene Expression Regulation, Neoplastic Urinary Bladder Neoplasms Cell Proliferation Computational Biology Cell Movement Cell Line, Tumor Treatment Outcome Immunotherapy Single-Cell Analysis Apoptosis Multiomics
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Improved enzyme functional annotation prediction using contrastive learning with structural inference.

Communications biology Dec 23, 2024
Recent years have witnessed the remarkable progress of deep learning within the realm of scientific disciplines, yielding a wealth of promising outcomes. A prominent challenge within this domain has been the task of predicting enzyme function, a comp...
Amino Acid Sequence Molecular Sequence Annotation Enzymes Prochlorococcus Computational Biology Proteome Databases, Protein Deep Learning
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Machine learning mathematical models for incidence estimation during pandemics.

PLoS computational biology Dec 23, 2024
Accurate estimates of the incidence of infectious diseases are key for the control of epidemics. However, healthcare systems are often unable to test the population exhaustively, especially when asymptomatic and paucisymptomatic cases are widespread;...
COVID-19 SARS-CoV-2 Incidence Machine Learning Pandemics Computational Biology Models, Theoretical Bayes Theorem Humans
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Predicting the infecting dengue serotype from antibody titre data using machine learning.

PLoS computational biology Dec 23, 2024
The development of a safe and efficacious vaccine that provides immunity against all four dengue virus serotypes is a priority, and a significant challenge for vaccine development has been defining and measuring serotype-specific outcomes and correla...
Humans Machine Learning Prospective Studies Computational Biology Dengue Virus Serogroup Dengue Child, Preschool Child Antibodies, Viral Male Thailand
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