Mining and integration of pathway diagrams from imaging data
| Autor: | Sergey Kozhenkov, Michael Baitaluk |
|---|---|
| Rok vydání: | 2012 |
| Předmět: |
Statistics and Probability
PubMed Computer science Cells Cell Context (language use) computer.software_genre Biochemistry Resource (project management) Medical Illustration Organelle medicine Data Mining Humans Molecular Biology Gene Organelles Internet Proteins Experimental data Data science Computer Science Applications Applications Note Computational Mathematics ComputingMethodologies_PATTERNRECOGNITION medicine.anatomical_structure Computational Theory and Mathematics computer Software Signal Transduction Data integration |
| Zdroj: | Bioinformatics. 28:739-742 |
| ISSN: | 1367-4811 1367-4803 |
| DOI: | 10.1093/bioinformatics/bts018 |
| Popis: | Motivation: Pathway diagrams from PubMed and World Wide Web (WWW) contain valuable highly curated information difficult to reach without tools specifically designed and customized for the biological semantics and high-content density of the images. There is currently no search engine or tool that can analyze pathway images, extract their pathway components (molecules, genes, proteins, organelles, cells, organs, etc.) and indicate their relationships. Results: Here, we describe a resource of pathway diagrams retrieved from article and web-page images through optical character recognition, in conjunction with data mining and data integration methods. The recognized pathways are integrated into the BiologicalNetworks research environment linking them to a wealth of data available in the BiologicalNetworks' knowledgebase, which integrates data from >100 public data sources and the biomedical literature. Multiple search and analytical tools are available that allow the recognized cellular pathways, molecular networks and cell/tissue/organ diagrams to be studied in the context of integrated knowledge, experimental data and the literature. Availability: BiologicalNetworks software and the pathway repository are freely available at www.biologicalnetworks.org. Contact: baitaluk@sdsc.edu Supplementary information: Supplementary data are available at Bioinformatics online. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
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