Merging and scoring molecular interactions utilising existing community standards: tools, use-cases and a case study
Autor: | H. Choi, Manor Askenazi, Peipei Ping, Henning Hermjakob, Sandra Orchard, Jose M. Villaveces, Marine Dumousseau, Nobel C. Zong, Pablo Porras, Bianca Habermann, Noemi del-Toro, Rafael C. Jimenez, Margaret Duesbury |
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Jazyk: | angličtina |
Rok vydání: | 2015 |
Předmět: |
Proteomics
Molecular interactions Scoring system SIMPLE (military communications protocol) Computer science Suite Experimental data computer.software_genre Models Biological General Biochemistry Genetics and Molecular Biology Database Tool Biological Ontologies Redundancy (engineering) Use case Data mining Community standards General Agricultural and Biological Sciences Databases Protein computer Algorithms Information Systems |
Zdroj: | Database: The Journal of Biological Databases and Curation Database : the journal of biological databases and curation |
ISSN: | 1758-0463 |
Popis: | The evidence that two molecules interact in a living cell is often inferred from multiple different experiments. Experimental data is captured in multiple repositories, but there is no simple way to assess the evidence of an interaction occurring in a cellular environment. Merging and scoring of data are commonly required operations after querying for the details of specific molecular interactions, to remove redundancy and assess the strength of accompanying experimental evidence. We have developed both a merging algorithm and a scoring system for molecular interactions based on the proteomics standard initiative‐molecular interaction standards. In this manuscript, we introduce these two algorithms and provide community access to the tool suite, describe examples of how these tools are useful to selectively present molecular interaction data and demonstrate a case where the algorithms were successfully used to identify a systematic error in an existing dataset. |
Databáze: | OpenAIRE |
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