ComPath: An ecosystem for exploring, analyzing, and curating mappings across pathway databases
| Autor: | Martin Hofmann-Apitius, Josep Marin-Llao, Charles Tapley Hoyt, Daniel Domingo-Fernández, Carlos Bobis Alvarez |
|---|---|
| Přispěvatelé: | Publica |
| Jazyk: | angličtina |
| Rok vydání: | 2018 |
| Předmět: |
0301 basic medicine
0303 health sciences Source code Database Computer science Applied Mathematics media_common.quotation_subject Interoperability computer.software_genre Technology Feature General Biochemistry Genetics and Molecular Biology Computer Science Applications 03 medical and health sciences 030104 developmental biology 0302 clinical medicine lcsh:Biology (General) Modeling and Simulation Drug Discovery computer lcsh:QH301-705.5 030217 neurology & neurosurgery 030304 developmental biology media_common |
| Zdroj: | npj Systems Biology and Applications, Vol 4, Iss 1, Pp 1-8 (2018) NPJ Systems Biology and Applications |
| DOI: | 10.1101/353235 |
| Popis: | Although pathways are widely used for the analysis and representation of biological systems, their lack of clear boundaries, their dispersion across numerous databases, and the lack of interoperability impedes the evaluation of the coverage, agreements, and discrepancies between them. Here, we present ComPath, an ecosystem that supports curation of pathway mappings between databases and fosters the exploration of pathway knowledge through several novel visualizations. We have curated mappings between three of the major pathway databases and present a case study focusing on Parkinson’s disease that illustrates how ComPath can generate new biological insights by identifying pathway modules, clusters, and cross-talks with these mappings. The ComPath source code and resources are available at https://github.com/ComPath and the web application can be accessed at https://compath.scai.fraunhofer.de/. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
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