DIMA 2.0—predicted and known domain interactions
| Autor: | Normann Strack, Oksana Tovstukhina, Volker Stümpflen, Matthias Oesterheld, Dmitrij Frishman, Philipp Pagel |
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| Jazyk: | angličtina |
| Rok vydání: | 2007 |
| Předmět: |
Internet
String (computer science) Proteins Computational biology Articles Biology Bioinformatics Protein–protein interaction Domain (software engineering) DIMA 2.0 domain interaction map User-Computer Interface Protein structure 3did Protein Interaction Mapping Genetics SIMAP Phylogenetic profiling Protein Interaction Domains and Motifs Databases Protein Phylogeny DIMA |
| Zdroj: | Nucleic Acids Research Nucleic Acids Res. 36, D651-655 (2008) |
| ISSN: | 1362-4962 0305-1048 |
| Popis: | DIMA-the domain interaction map has evolved from a simple web server for domain phylogenetic profiling into an integrative prediction resource combining both experimental data on domain-domain interactions and predictions from two different algorithms. With this update, DIMA obtains greatly improved coverage at the level of genomes and domains as well as with respect to available prediction approaches. The domain phylogenetic profiling method now uses SIMAP as its backend for exhaustive domain hit coverage: 7038 Pfam domains were profiled over 460 completely sequenced genomes. Domain pair exclusion predictions were produced from 83 969 distinct protein-protein interactions obtained from IntAct resulting in 21 513 domain pairs with significant domain pair exclusion algorithm scores. Additional predictions applying the same algorithm to predicted protein interactions from STRING yielded 2378 high-confidence pairs. Experimental data comes from iPfam (3074) and 3did (3034 pairs), two databases identifying domain contacts in solved protein structures. Taken together, these two resources yielded 3653 distinct interacting domain pairs. DIMA is available at http://mips.gsf.de/genre/proj/dima. |
| Databáze: | OpenAIRE |
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