AIMC Topic: Multiomics
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Rhythm profiling using COFE reveals multi-omic circadian rhythms in human cancers in vivo.
PLoS biology
May 1, 2025
The study of ubiquitous circadian rhythms in human physiology requires regular measurements across time. Repeated sampling of the different internal tissues that house circadian clocks is both practically and ethically infeasible. Here, we present a ...
Oxidative Phosphorylation Pathway in Ankylosing Spondylitis: Multi-Omics Analysis and Machine Learning.
International journal of rheumatic diseases
May 1, 2025
INTRODUCTION: Ankylosing spondylitis (AS) is a chronic inflammatory disease affecting the axial skeleton, characterized by immune microenvironment dysregulation and elevated cytokines like TNF-α and IL-17. Mitochondrial oxidative phosphorylation (OXP...
Federated transfer learning with differential privacy for multi-omics survival analysis.
Briefings in bioinformatics
Mar 4, 2025
Multi-omics data often suffer from the "big $p$, small $n$" problem where the dimensionality of features is significantly larger than the sample size, making the integration of multi-omics data for survival analysis of a specific cancer particularly ...
FactVAE: a factorized variational autoencoder for single-cell multi-omics data integration analysis.
Briefings in bioinformatics
Mar 4, 2025
Single-cell multi-omics technologies have revolutionized the study of cell states and functions by simultaneously profiling multiple molecular layers within individual cells. However, existing methods for integrating these data struggle to preserve c...
PCLSurv: a prototypical contrastive learning-based multi-omics data integration model for cancer survival prediction.
Briefings in bioinformatics
Mar 4, 2025
Accurate cancer survival prediction remains a critical challenge in clinical oncology, largely due to the complex and multi-omics nature of cancer data. Existing methods often struggle to capture the comprehensive range of informative features requir...
Benchmarking ensemble machine learning algorithms for multi-class, multi-omics data integration in clinical outcome prediction.
Briefings in bioinformatics
Mar 4, 2025
The complementary information found in different modalities of patient data can aid in more accurate modelling of a patient's disease state and a better understanding of the underlying biological processes of a disease. However, the analysis of multi...
An Attention-Based Deep Neural Network Model to Detect Cis-Regulatory Elements at the Single-Cell Level From Multi-Omics Data.
Genes to cells : devoted to molecular & cellular mechanisms
Mar 1, 2025
Cis-regulatory elements (cREs) play a crucial role in regulating gene expression and determining cell differentiation and state transitions. To capture the heterogeneous transitions of cell states associated with these processes, detecting cRE activi...
Integrative machine learning approach for identification of new molecular scaffold and prediction of inhibition responses in cancer cells using multi-omics data.
Briefings in functional genomics
Jan 15, 2025
MDM2 (Mouse Double Minute 2), a fundamental governor of the p53 tumor suppressor pathway, has garnered significant attention as a favorable target for cancer therapy. Recent years have witnessed the development and synthesis of potent MDM2 inhibitors...
AI-driven multi-omics profiling of sepsis immunity in the digestive system.
Frontiers in immunology
Jan 1, 2025
Sepsis is a life-threatening systemic inflammatory syndrome characterized by a complex immune biphasic imbalance. Monitoring of immune status has not yet been implemented in clinical practice due to lack of direct therapeutic utility. Immune dysregul...
Multi-omics analysis and experiments uncover the link between cancer intrinsic drivers, stemness, and immunotherapy in ovarian cancer with validation in a pan-cancer census.
Frontiers in immunology
Jan 1, 2025
BACKGROUND: Although immune checkpoint inhibitors (ICIs) represent a substantial breakthrough in cancer treatment, it is crucial to acknowledge that their efficacy is limited to a subset of patients. The heterogeneity and stemness of cancer render it...
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