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The Mouse Genome Database (MGD): facilitating mouse as a model for human biology and disease.

Eppig JT, Blake JA, Bult CJ, Kadin JA, Richardson JE, Mouse Genome Database Gro - Nucleic Acids Res. (2014)

Bottom Line: MGD maintains a unified catalog of genes and genome features, including functional RNAs, QTL and phenotypic loci.MGD has also updated search paradigms for phenotypic allele attributes, incorporated incidental mutation data, added a module for display and exploration of genes and microRNA interactions and adopted the JBrowse genome browser.MGD resources are freely available to the scientific community.

View Article: PubMed Central - PubMed

Affiliation: The Jackson Laboratory, 600 Main Street, Bar Harbor, ME 04609, USA janan.eppig@jax.org.

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Allele attributes and project collections. Screen shot of the Categories ribbon from the Phenotypes, Alleles & Disease Models Query Form (http://www.informatics.jax.org/allele/). When searching for alleles with specific characteristics a generation method may be selected, one or more allele attributes may be selected, and membership of an allele in a project collection may be selected. For example, one might select the generation method ‘Chemically induced (ENU)’ and attribute ‘Hypomorph’ to find those ENU mutations that show partial function. A selection from the project collections attribute would further restrict one's query to those alleles generated in the project(s) selected.
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Figure 7: Allele attributes and project collections. Screen shot of the Categories ribbon from the Phenotypes, Alleles & Disease Models Query Form (http://www.informatics.jax.org/allele/). When searching for alleles with specific characteristics a generation method may be selected, one or more allele attributes may be selected, and membership of an allele in a project collection may be selected. For example, one might select the generation method ‘Chemically induced (ENU)’ and attribute ‘Hypomorph’ to find those ENU mutations that show partial function. A selection from the project collections attribute would further restrict one's query to those alleles generated in the project(s) selected.

Mentions: The MGD schema and web pages reflecting data on allele categories, attributes and project collections have been re-implemented and expanded. Formerly allele categories included multiple concepts within a single term. For example, the categorical term targeted (knock-out) referred to mutant alleles that were generated by gene targeting techniques and were functionally . This term now is represented as a Generation Method of targeted and an Allele Attribute of /knockout. The change separates the generation method and attributes concepts and allows users to consider multiple attributes simultaneously (Figure 6), for example reporter and /knockout—if the targeted mutation includes a LacZ reporter, as well as ablating gene function. The additional category of project collections is an enhancement to assist in accessing all mutant alleles from a large-scale project in a single search, for example all of the mutant alleles created by the Pleiades Promoter Project (22) or by the B2B/CvDC (Bench-to-Bassinet/Cardiovascular Development Consortium) Project (21) (Figure 7).


The Mouse Genome Database (MGD): facilitating mouse as a model for human biology and disease.

Eppig JT, Blake JA, Bult CJ, Kadin JA, Richardson JE, Mouse Genome Database Gro - Nucleic Acids Res. (2014)

Allele attributes and project collections. Screen shot of the Categories ribbon from the Phenotypes, Alleles & Disease Models Query Form (http://www.informatics.jax.org/allele/). When searching for alleles with specific characteristics a generation method may be selected, one or more allele attributes may be selected, and membership of an allele in a project collection may be selected. For example, one might select the generation method ‘Chemically induced (ENU)’ and attribute ‘Hypomorph’ to find those ENU mutations that show partial function. A selection from the project collections attribute would further restrict one's query to those alleles generated in the project(s) selected.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
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getmorefigures.php?uid=PMC4384027&req=5

Figure 7: Allele attributes and project collections. Screen shot of the Categories ribbon from the Phenotypes, Alleles & Disease Models Query Form (http://www.informatics.jax.org/allele/). When searching for alleles with specific characteristics a generation method may be selected, one or more allele attributes may be selected, and membership of an allele in a project collection may be selected. For example, one might select the generation method ‘Chemically induced (ENU)’ and attribute ‘Hypomorph’ to find those ENU mutations that show partial function. A selection from the project collections attribute would further restrict one's query to those alleles generated in the project(s) selected.
Mentions: The MGD schema and web pages reflecting data on allele categories, attributes and project collections have been re-implemented and expanded. Formerly allele categories included multiple concepts within a single term. For example, the categorical term targeted (knock-out) referred to mutant alleles that were generated by gene targeting techniques and were functionally . This term now is represented as a Generation Method of targeted and an Allele Attribute of /knockout. The change separates the generation method and attributes concepts and allows users to consider multiple attributes simultaneously (Figure 6), for example reporter and /knockout—if the targeted mutation includes a LacZ reporter, as well as ablating gene function. The additional category of project collections is an enhancement to assist in accessing all mutant alleles from a large-scale project in a single search, for example all of the mutant alleles created by the Pleiades Promoter Project (22) or by the B2B/CvDC (Bench-to-Bassinet/Cardiovascular Development Consortium) Project (21) (Figure 7).

Bottom Line: MGD maintains a unified catalog of genes and genome features, including functional RNAs, QTL and phenotypic loci.MGD has also updated search paradigms for phenotypic allele attributes, incorporated incidental mutation data, added a module for display and exploration of genes and microRNA interactions and adopted the JBrowse genome browser.MGD resources are freely available to the scientific community.

View Article: PubMed Central - PubMed

Affiliation: The Jackson Laboratory, 600 Main Street, Bar Harbor, ME 04609, USA janan.eppig@jax.org.

Show MeSH