ProDBWiki/DeveloperDocumentation/ReduceSearchSpace

Reduce Search Space

Idea

You have mass spectra data and you want to do a search against a database to get the possible names of the protein. On the Mass Spectra Data: MS Query site you can choose between different search parameters and which search tool you want to use (mascot or emowse). If you want to get a better score (for example, when no significant hit is found) you can reduce the search space. That means, at first you do a "normal" search against a database of your choice. After that, the program automatically generates a new database (name: prodb-tmp) with the sequences of the hits from the first search. Then a new search is created with the same search parameters as before only the database changes. Now the programm searches against the new generated database (prodb-tmp). After all searches are completed, you can view the results.

Creating a New Database

Author: Nicole de la Chaux