AIMC Topic: Computational Biology

Clear Filters Showing 911 to 920 of 4399 articles

Geometric deep learning of protein-DNA binding specificity.

Nature methods Aug 5, 2024
Predicting protein-DNA binding specificity is a challenging yet essential task for understanding gene regulation. Protein-DNA complexes usually exhibit binding to a selected DNA target site, whereas a protein binds, with varying degrees of binding sp...
DNA Models, Molecular DNA-Binding Proteins Deep Learning Protein Binding Computational Biology Binding Sites
View on PubMed DOI

Reliable estimation of tree branch lengths using deep neural networks.

PLoS computational biology Aug 5, 2024
A phylogenetic tree represents hypothesized evolutionary history for a set of taxa. Besides the branching patterns (i.e., tree topology), phylogenies contain information about the evolutionary distances (i.e. branch lengths) between all taxa in the t...
Algorithms Phylogeny Likelihood Functions Deep Learning Sequence Alignment Neural Networks, Computer Machine Learning Computational Biology Models, Genetic Evolution, Molecular
View on PubMed DOI

Quantitative drug susceptibility testing for Mycobacterium tuberculosis using unassembled sequencing data and machine learning.

PLoS computational biology Aug 5, 2024
There remains a clinical need for better approaches to rapid drug susceptibility testing in view of the increasing burden of multidrug resistant tuberculosis. Binary susceptibility phenotypes only capture changes in minimum inhibitory concentration w...
Mycobacterium tuberculosis Machine Learning Microbial Sensitivity Tests Computational Biology Antitubercular Agents Humans Tuberculosis, Multidrug-Resistant Whole Genome Sequencing
View on PubMed DOI

GraphPro: An interpretable graph neural network-based model for identifying promoters in multiple species.

Computers in biology and medicine Aug 2, 2024
Promoters are DNA sequences that bind with RNA polymerase to initiate transcription, regulating this process through interactions with transcription factors. Accurate identification of promoters is crucial for understanding gene expression regulation...
Computational Biology Sequence Analysis, DNA Promoter Regions, Genetic Humans Neural Networks, Computer Software Animals Mice
View on PubMed DOI

Integrating bioinformatics and machine learning methods to analyze diagnostic biomarkers for HBV-induced hepatocellular carcinoma.

Diagnostic pathology Aug 2, 2024
Hepatocellular carcinoma (HCC) is a malignant tumor. It is estimated that approximately 50-80% of HCC cases worldwide are caused by hepatitis b virus (HBV) infection, and other pathogenic factors have been shown to promote the development of HCC when...
Gene Expression Regulation, Neoplastic Databases, Genetic GTPase-Activating Proteins Hepatitis B virus Hepatitis B Computational Biology Gene Expression Profiling Liver Neoplasms Carcinoma, Hepatocellular Humans Machine Learning Biomarkers, Tumor
View on PubMed DOI

Interactive molecular causal networks of hypertension using a fast machine learning algorithm MRdualPC.

BMC medical research methodology Aug 2, 2024
BACKGROUND: Understanding the complex interactions between genes and their causal effects on diseases is crucial for developing targeted treatments and gaining insight into biological mechanisms. However, the analysis of molecular networks, especiall...
Computational Biology Hypertension Cluster Analysis Gene Expression Profiling Transcriptome Gene Regulatory Networks Humans Machine Learning Algorithms
View on PubMed DOI

Phenotype prediction using biologically interpretable neural networks on multi-cohort multi-omics data.

NPJ systems biology and applications Aug 2, 2024
Integrating multi-omics data into predictive models has the potential to enhance accuracy, which is essential for precision medicine. In this study, we developed interpretable predictive models for multi-omics data by employing neural networks inform...
Female Aged Adult Humans Neural Networks, Computer Phenotype Genomics DNA Methylation Computational Biology CpG Islands Multiomics Smoking Male Middle Aged Cohort Studies
View on PubMed DOI

AI-Driven Deep Learning Techniques in Protein Structure Prediction.

International journal of molecular sciences Aug 1, 2024
Protein structure prediction is important for understanding their function and behavior. This review study presents a comprehensive review of the computational models used in predicting protein structure. It covers the progression from established pr...
Artificial Intelligence Deep Learning Computational Biology Proteins Models, Molecular Protein Conformation
View on PubMed DOI

Single-cell and bulk RNA-sequence identified fibroblasts signature and CD8 + T-cell - fibroblast subtype predicting prognosis and immune therapeutic response of bladder cancer, based on machine learning: bioinformatics multi-omics study.

International journal of surgery (London, England) Aug 1, 2024
BACKGROUND: Cancer-associated fibroblasts (CAFs) are found in primary and advanced tumours. They are primarily involved in tumour progression through complex mechanisms with other types of cells in the tumour microenvironment. However, essential fibr...
Transcriptome Single-Cell Analysis Computational Biology Female Tumor Microenvironment Male Urinary Bladder Neoplasms Humans Cancer-Associated Fibroblasts Machine Learning CD8-Positive T-Lymphocytes Prognosis Immunotherapy Multiomics Sequence Analysis, RNA
View on PubMed DOI

A Hybrid GNN Approach for Improved Molecular Property Prediction.

Journal of computational biology : a journal of computational molecular cell biology Jul 31, 2024
The development of new drugs is a vital effort that has the potential to improve human health, well-being and life expectancy. Molecular property prediction is a crucial step in drug discovery, as it helps to identify potential therapeutic compounds....
Humans Drug Discovery Neural Networks, Computer Deep Learning Algorithms Computational Biology
View on PubMed DOI
Popular Topics
Recent Journals