AIMC Topic: Computational Biology

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Applying 12 machine learning algorithms and Non-negative Matrix Factorization for robust prediction of lupus nephritis.

Frontiers in immunology Aug 19, 2024
Lupus nephritis (LN) is a challenging condition with limited diagnostic and treatment options. In this study, we applied 12 distinct machine learning algorithms along with Non-negative Matrix Factorization (NMF) to analyze single-cell datasets from k...
Lupus Nephritis Adult Male Gene Expression Profiling Algorithms Biomarkers Female Single-Cell Analysis Protein Interaction Maps Computational Biology Humans Machine Learning
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CircCNNs, a convolutional neural network framework to better understand the biogenesis of exonic circRNAs.

Scientific reports Aug 16, 2024
Circular RNAs (circRNAs) as biomarkers for cancer detection have been extensively explored, however, the biogenesis mechanism is still elusive. In contrast to linear splicing (LS) involved in linear transcript formation, the so-called back splicing (...
Neural Networks, Computer Machine Learning Computational Biology RNA Splicing Exons RNA, Circular Humans
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TCR-H: explainable machine learning prediction of T-cell receptor epitope binding on unseen datasets.

Frontiers in immunology Aug 16, 2024
Artificial-intelligence and machine-learning (AI/ML) approaches to predicting T-cell receptor (TCR)-epitope specificity achieve high performance metrics on test datasets which include sequences that are also part of the training set but fail to gener...
Machine Learning Epitopes, T-Lymphocyte Receptors, Antigen, T-Cell Humans Protein Binding Computational Biology Support Vector Machine
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Protein Language Models and Machine Learning Facilitate the Identification of Antimicrobial Peptides.

International journal of molecular sciences Aug 14, 2024
Peptides are bioactive molecules whose functional versatility in living organisms has led to successful applications in diverse fields. In recent years, the amount of data describing peptide sequences and function collected in open repositories has s...
Amino Acid Sequence Antimicrobial Peptides Computational Biology Antimicrobial Cationic Peptides Machine Learning Algorithms Drug Discovery
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Exploration of the shared diagnostic genes and mechanisms between periodontitis and primary Sjögren's syndrome by integrated comprehensive bioinformatics analysis and machine learning.

International immunopharmacology Aug 13, 2024
BACKGROUND: Accumulating evidence has showed a bidirectional link between periodontitis (PD) and primary Sjögren's syndrome (pSS), but the mechanisms of their occurrence remain unclear. Hence, this study aimed to investigate the shared diagnostic gen...
Sjogren's Syndrome Gene Regulatory Networks Computational Biology Databases, Genetic MicroRNAs Periodontitis Receptors, CXCR4 Humans Machine Learning Gene Expression Profiling
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Identification and analysis of significant genes in nonalcoholic steatohepatitis-hepatocellular carcinoma transformation: Bioinformatics analysis and machine learning approach.

Molecular immunology Aug 13, 2024
PURPOSE: Nonalcoholic steatohepatitis (NASH) has been an increasingly significant contributor to hepatocellular carcinoma (HCC). Understanding the progression from NASH to HCC is critical to early diagnosis and elucidating the underlying mechanisms.
Cell Transformation, Neoplastic Suppressor of Cytokine Signaling Proteins Liver Neoplasms Carcinoma, Hepatocellular Single-Cell Analysis Computational Biology Gene Expression Regulation, Neoplastic Non-alcoholic Fatty Liver Disease Humans Machine Learning Prognosis Disease Progression Cell Line, Tumor
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MCNN_MC: Computational Prediction of Mitochondrial Carriers and Investigation of Bongkrekic Acid Toxicity Using Protein Language Models and Convolutional Neural Networks.

Journal of chemical information and modeling Aug 12, 2024
Mitochondrial carriers (MCs) are essential proteins that transport metabolites across mitochondrial membranes and play a critical role in cellular metabolism. ADP/ATP (adenosine diphosphate/adenosine triphosphate) is one of the most important carrier...
Mitochondria Bongkrekic Acid Mitochondrial ADP, ATP Translocases Neural Networks, Computer Computational Biology Humans Models, Molecular
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Mechanisms of QingRe HuoXue Formula in atherosclerosis Treatment: An integrated approach using Bioinformatics, Machine Learning, and experimental validation.

International immunopharmacology Aug 12, 2024
BACKGROUND: Atherosclerosis (AS) is the main cause of coronary heart disease, cerebral infarction, and peripheral vascular disease. QingRe HuoXue Formula (QRHXF), a common prescription of traditional Chinese medicine, has a definite effect on the cli...
Animals Male Molecular Docking Simulation Humans Machine Learning Drugs, Chinese Herbal Atherosclerosis Plaque, Atherosclerotic Collagen Type I Collagen Type I, alpha 1 Chain Computational Biology Disease Models, Animal Mice, Inbred C57BL Gene Expression Profiling Mice
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Positive-Unlabelled learning for identifying new candidate Dietary Restriction-related genes among ageing-related genes.

Computers in biology and medicine Aug 12, 2024
Dietary Restriction (DR) is one of the most popular anti-ageing interventions; recently, Machine Learning (ML) has been explored to identify potential DR-related genes among ageing-related genes, aiming to minimize costly wet lab experiments needed t...
Machine Learning Aging Computational Biology Humans Caloric Restriction
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Optimizing cancer diagnosis: A hybrid approach of genetic operators and Sinh Cosh Optimizer for tumor identification and feature gene selection.

Computers in biology and medicine Aug 10, 2024
The identification of tumors through gene analysis in microarray data is a pivotal area of research in artificial intelligence and bioinformatics. This task is challenging due to the large number of genes relative to the limited number of observation...
Gene Expression Profiling Computational Biology Support Vector Machine Humans Algorithms Neoplasms
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