MUGEN MICE DATABASE (MMdb) (www.mugen-noe.org/database/). What is the MMdb. MMdb is the MUGEN consortium’s virtual on-line mutant mouse strain repository It is a database whose schema was designed with PostgreSQL and is managed with enterprise java beans ( EJBs ) technology
The mutant list can be sorted according to research application, affected gene, institution, mutation type and dissemination level by simply selecting a value from the drop down menu
Each tab represents a different category of data relevant to a mutant
Each category can be easily edited as long as the user has the right to
User’s comments (user may post comment on particular mutant mouse)
Basic data creation/editing of mutant
Line name entered, research application chosen from drop-down list, contact person selected, comments inserted and desired dissemination level chosen
NOTE – the desired dissemination level is different from the actual dissemination level. The actual dissemination can be switched to public only by the MMdb administration and only after the data have been thoroughly checked for their correctness and integrity.
Apart from general & availability information, one can also add
(DNA origin, targeted, host and backcrossing background and of course number of backcrosses)
(you can pick a mutation type from a drop-down list, add the allele’s name and symbol, its MGI id etc.)
(one can either choose from a list or provide a new gene)
Similar to mutant mouse data entry/editing, GENE submission is also available
Apart from obvious gene information such as gene name, gene symbol and chromosome one can be redirected to other on-line databases, notably MGI, ENTREZ, ENSEMBL, ARRAYEXPRESS and EUREXPRESS II
A gene’s page – lists all the related MUGEN mutant mice
The MMdb search engine is looking for the provided keyword in every possible field in the database.
Just type in a little keyword and press search.
For this example we are looking for ‘cre’
The cre search resulted in a list of 50 mutants & genes
The list contains the name of the entity that contained the keyword, its entity type and some comments (if available)
All major functionalities (a.k.a. workflows) of the MMdb are split into 3 categories each represented by a tab
To see all the detailed steps of a workflow – just click on the tab
The public view is more or less the same as the registered user’s view….
But (at least for now) less mice are enlisted, since less mice are registered as public…
Public mice offer the same amount of information for registered and unregistered users
The biggest difference though is that public users have absolutely no write permission on any sort of data
We have browsed through MMdb and considered the abilities that this database has
Icons on the right hand side of the MMdb page
Will lead directly to IMSR’s, EMMA’s, MGI’s, EurExpress’s, ArrayExpress’s or Ensembl’s search pages
*The Mouse Phenotype Database Intergration Consortium (2007) Integration of mouse phenome data resources.Mamm Genome18(3):157-163
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