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Help
Search capabilitiesMfunGD offers two kinds of search tools:
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Simple searchThe tool for users which are interested in a certain gene(e.g. Casq1),
protein (e.g. calsequestrin) or MfunGD entry (e.g. mc1002290).
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Advanced searchFor users who are interested in sets of proteins with specified features.
The "Advanced search" allows to combine several searches within one expression. See the "Advanced
search" site for more details and search examples.
Other
Browse FunCatUsers who are interested in sets of proteins with a specific function like
e.g. glycolysis are able to navigate through the FunCat functional categories and to inspect all
mouse entries which are associated with the respective FunCat.
Browse ECUsers who are interested in proteins with a certain enzymatic activity are able
to inspect all mouse proteins with the respective catalytic activity.
About MfunGDContains general information about the project, e.g. people who were involved,
FTP sites and a glossary.
FunCatsAnnotation of protein function is performed using the FunCat annotation scheme
(Ruepp
et al., 2004, NAR, 5539-5545). In the manual annotation process textual information from the
literature is being transformed into numeric functional categories which can be applied for
bioinformatics methods. FunCat categories are linked to the FunCat database which stores
information associated with functional categories.
EC numbersProteins with enzymatic function are classified by using the Enzyme
Nomenclature. For details, please see Nomenclature Committee of the International Union of
Biochemistry and Molecular Biology (NC-IUBMB).
Protein interactionsProtein-protein interactions: Here, manually annotated protein-protein
interactions from the Mammalian Protein-Protein Interaction database (MPPI) are presented
(Pagel
et al., 2005, Bioinformatics, 832-834). Links to the interacting proteins as well as to the
interaction evidence are available. Data of external resources will also be included. Protein
complexes (CORUM): Currently, more than 1800 protein complexes were manually annotated at MIPS
(PMID: 17965090). Proteins which were found to be part of a protein complex are linked to the
respective complex.
Automatically derived featuresAutomatically derived features like InterPro domains, FASTA
hits (SIMAP homologues) and protein signatures are linked to their respective resource.
UCSC Genome BrowserLocalization of genes on mouse chromosomes can be inspected via the
UCSC Genome Browser. Mouse pseudogenes from the
dataset of Gerstein have been mapped to the mouse
genome and integrated into the UCSC Genome Browser as pseudogene track.
Physical featuresPhysical features include the localization of genes on mouse chromosomes,
protein length, exon coordinates and number of exons and a link to the protein and cDNA sequence.
Literature/Cross-references
Curated Literature/PMIDShows the articles that were used for the functional annotation of
the respective protein.
RefSeq, SwissProt and MGIThese fields contain cross-references to respective entries of
other resources.
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