ArticleScientific reports2015
Using activation status of signaling pathways as mechanism-based biomarkers to predict drug sensitivity.
Article in Scientific reports, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- The mechanistic functional landscape of retinitis pigmentosa: a machine learning-driven approach to therapeutic target discovery.Journal of translational medicine · 2024Article
- Crosstalk between Metabolite Production and Signaling Activity in Breast Cancer.International journal of molecular sciences · 2023Article
- Discovering potential interactions between rare diseases and COVID-19 by combining mechanistic models of viral infection with statistical modeling.Human molecular genetics · 2022Article
- A comprehensive database for integrated analysis of omics data in autoimmune diseases.BMC bioinformatics · 2021Article
- Medical Device Industry Approaches for Addressing Sources of Failing Cytotoxicity Scores.Biomedical instrumentation & technology · 2021Article
- Model guided trait-specific co-expression network estimation as a new perspective for identifying molecular interactions and pathways.PLoS computational biology · 2021Article
- A versatile workflow to integrate RNA-seq genomic and transcriptomic data into mechanistic models of signaling pathways.PLoS computational biology · 2021Article
- Mechanistic modeling of the SARS-CoV-2 disease map.BioData mining · 2021Article
- Genome-scale mechanistic modeling of signaling pathways made easy: A bioconductor/cytoscape/web server framework for the analysis of omic data.Computational and structural biotechnology journal · 2021Article
- A Review of CurrentFrontiers in oncology · 2021Review
- Article
- Mechanistic models of signaling pathways deconvolute the glioblastoma single-cell functional landscape.NAR cancer · 2020Article
- Using mechanistic models for the clinical interpretation of complex genomic variation.Scientific reports · 2019Article
- Future Directions of Pharmacovigilance Studies Using Electronic Medical Recording and Human Genetic Databases.Toxicological research · 2019Review
- A comparison of mechanistic signaling pathway activity analysis methods.Briefings in bioinformatics · 2019Review
- Exploring the druggable space around the Fanconi anemia pathway using machine learning and mechanistic models.BMC bioinformatics · 2019Article
- FoPA: identifying perturbed signaling pathways in clinical conditions using formal methods.BMC bioinformatics · 2019Article
- Differential metabolic activity and discovery of therapeutic targets using summarized metabolic pathway models.NPJ systems biology and applications · 2019Article
- The poly-omics of ageing through individual-based metabolic modelling.BMC bioinformatics · 2018Article
- PanDrugs: a novel method to prioritize anticancer drug treatments according to individual genomic data.Genome medicine · 2018Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Many complex traits, as drug response, are associated with changes in biological pathways rather than being caused by single gene alterations. Here, a predictive framework is presented in which gene expression data are recoded into activity statuses of signal transduction circuits (sub-pathways within signaling pathways that connect receptor proteins to final effector proteins that trigger cell actions). Such activity values are used as features by a prediction algorithm which can efficiently predict a continuous variable such as the IC50 value. The main advantage of this prediction method is that the features selected by the predictor, the signaling circuits, are themselves rich-informative, mechanism-based biomarkers which provide insight into or drug molecular mechanisms of action (MoA).
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