AIMC Topic: Systems Biology

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Systems biology and machine learning approaches identify drug targets in diabetic nephropathy.

Scientific reports Dec 6, 2021
Diabetic nephropathy (DN), the leading cause of end-stage renal disease, has become a massive global health burden. Despite considerable efforts, the underlying mechanisms have not yet been comprehensively understood. In this study, a systematic appr...
Support Vector Machine Cluster Analysis MicroRNAs Regression Analysis Systems Biology Epigenesis, Genetic Signal Transduction Oligonucleotide Array Sequence Analysis Mice, Inbred DBA Kidney Cortex Kidney Medulla Principal Component Analysis Linear Models Global Health Chemistry, Pharmaceutical Machine Learning Drug Design Microarray Analysis Algorithms Gene Expression Profiling Animals Gene Regulatory Networks Male Mice Diabetic Nephropathies Humans Computational Biology
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Leveraging machine learning essentiality predictions and chemogenomic interactions to identify antifungal targets.

Nature communications Nov 11, 2021
Fungal pathogens pose a global threat to human health, with Candida albicans among the leading killers. Systematic analysis of essential genes provides a powerful strategy to discover potential antifungal targets. Here, we build a machine learning mo...
Machine Learning Genome-Wide Association Study Systems Biology Candida albicans Antifungal Agents Kinetochores
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The simulation experiment description markup language (SED-ML): language specification for level 1 version 4.

Journal of integrative bioinformatics Oct 5, 2021
Computational simulation experiments increasingly inform modern biological research, and bring with them the need to provide ways to annotate, archive, share and reproduce the experiments performed. These simulations increasingly require extensive co...
Models, Biological Language Programming Languages Ecosystem Systems Biology
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Genetic dissection of complex traits using hierarchical biological knowledge.

PLoS computational biology Sep 17, 2021
Despite the growing constellation of genetic loci linked to common traits, these loci have yet to account for most heritable variation, and most act through poorly understood mechanisms. Recent machine learning (ML) systems have used hierarchical bio...
Knowledge Bases Saccharomyces cerevisiae Gene Ontology Hydroxyurea Mutation Glucose Glycine Chromosome Mapping Multifactorial Inheritance Benomyl Nucleotidyltransferases Genome-Wide Association Study Polymorphism, Single Nucleotide Computational Biology Systems Biology Models, Genetic Metabolic Networks and Pathways Copper Neural Networks, Computer Machine Learning Phenotype
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Literature Mining and Mechanistic Graphical Modelling to Improve mRNA Vaccine Platforms.

Frontiers in immunology Sep 7, 2021
RNA vaccines represent a milestone in the history of vaccinology. They provide several advantages over more traditional approaches to vaccine development, showing strong immunogenicity and an overall favorable safety profile. While preclinical testin...
Computer Graphics Models, Immunological mRNA Vaccines Humans Vaccine Development Natural Language Processing Animals Systems Biology Translational Research, Biomedical Knowledge Bases Data Mining
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The lower threshold as a unifying principle between Code Biology and Biosemiotics.

Bio Systems Aug 25, 2021
Whether we emphasize the notion of 'sign' or the notion of 'code', either way the main interest of biosemiotics and Code Biology is the same, and we argue that the idea of the lower threshold is what still unifies these two groups. Code Biology conce...
Genetic Code Humans Systems Biology Artificial Intelligence Evolution, Molecular Animals Robotics
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Integrating ensemble systems biology feature selection and bimodal deep neural network for breast cancer prognosis prediction.

Scientific reports Jul 21, 2021
Breast cancer is a heterogeneous disease. To guide proper treatment decisions for each patient, robust prognostic biomarkers, which allow reliable prognosis prediction, are necessary. Gene feature selection based on microarray data is an approach to ...
Forecasting Prognosis Female Breast Neoplasms Humans Biomarkers, Tumor Support Vector Machine Neural Networks, Computer Survival Analysis Deep Learning Systems Biology
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The Trifecta of Single-Cell, Systems-Biology, and Machine-Learning Approaches.

Genes Jul 20, 2021
Together, single-cell technologies and systems biology have been used to investigate previously unanswerable questions in biomedicine with unparalleled detail. Despite these advances, gaps in analytical capacity remain. Machine learning, which has re...
Systems Biology High-Throughput Screening Assays Drug Discovery Single-Cell Analysis Computational Biology Machine Learning Humans Algorithms Precision Medicine Animals
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Systems biology informed neural networks (SBINN) predict response and novel combinations for PD-1 checkpoint blockade.

Communications biology Jul 15, 2021
Anti-PD-1 immunotherapy has recently shown tremendous success for the treatment of several aggressive cancers. However, variability and unpredictability in treatment outcome have been observed, and are thought to be driven by patient-specific biology...
Male Middle Aged Immune Checkpoint Inhibitors Systems Biology Neural Networks, Computer Humans Programmed Cell Death 1 Receptor Female Aged Adult
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Prioritizing Molecular Biomarkers in Asthma and Respiratory Allergy Using Systems Biology.

Frontiers in immunology Apr 15, 2021
Highly prevalent respiratory diseases such as asthma and allergy remain a pressing health challenge. Currently, there is an unmet need for precise diagnostic tools capable of predicting the great heterogeneity of these illnesses. In a previous study ...
Neural Networks, Computer Biomarkers Models, Theoretical Asthma Humans Hypersensitivity Systems Biology
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