AIMC Topic: Computational Biology

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Novel anoikis-related diagnostic biomarkers for aortic dissection based on machine learning.

Scientific reports Dec 28, 2024
Aortic dissection (AD) is one of the most dangerous diseases of the cardiovascular system, which is characterized by acute onset and poor prognosis, while the pathogenesis of AD is still unclear and may affect or even delay the diagnosis of AD. Ancho...
Anoikis Tubulin Gene Ontology Humans Computational Biology Machine Learning Tumor Suppressor Protein p53 Aortic Dissection Biomarkers ROC Curve
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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...
Computational Biology RNA, Long Noncoding Codon Humans Deep Learning
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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...
Humans Machine Learning Alzheimer Disease Computational Biology Biomarkers Transcriptome Gene Expression Profiling Protein Interaction Maps Gene Regulatory Networks
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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 Deep Learning Protein Structure, Secondary Computational Biology Software 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...
Cell Line RNA, Long Noncoding Machine Learning Cell Line, Tumor Humans Computational Biology 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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EnDM-CPP: A Multi-view Explainable Framework Based on Deep Learning and Machine Learning for Identifying Cell-Penetrating Peptides with Transformers and Analyzing Sequence Information.

Interdisciplinary sciences, computational life sciences Dec 23, 2024
Cell-Penetrating Peptides (CPPs) are a crucial carrier for drug delivery. Since the process of synthesizing new CPPs in the laboratory is both time- and resource-consuming, computational methods to predict potential CPPs can be used to find CPPs to e...
Humans Neural Networks, Computer Computational Biology Amino Acid Sequence Cell-Penetrating Peptides Algorithms Deep Learning Machine Learning
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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...
Supervised Machine Learning Peptides Computational Biology Machine Learning Humans 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...
Proteasome Endopeptidase Complex Cell Movement Apoptosis Multiomics Gene Expression Regulation, Neoplastic Treatment Outcome Urinary Bladder Neoplasms Cell Proliferation Single-Cell Analysis Computational Biology Immunotherapy Tumor Microenvironment Cell Line, Tumor Humans Prognosis Neural Networks, Computer Reproducibility of Results
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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...
Deep Learning Computational Biology Molecular Sequence Annotation Enzymes Prochlorococcus Databases, Protein Amino Acid Sequence Proteome
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