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News and Announcements for 2017
October 20, 2017
The Alliance of Genome Resources' (AGR) goal is to provide a consistent user interface with an integrated view of data from 6 Model Organism Databases and the Gene Ontology (GO) Consortium. The founding database members of the Alliance are Flybase, Mouse Genome Database, Rat Genome Database, Saccharomyces Genome Database, Wormbase, and the Zebrafish Information Network. This initial public release (AGR 1.0) allows users to search for, and view, gene, functional (GO) data, and disease associations from the above seven sources. The release includes orthology data for human and Alliance organisms, built on the DRSC Integrative Ortholog Prediction Tool (DIOPT), which integrates several prediction approaches.
The summary section of MGI Gene Detail pages now offers links to AGR (Alliance) mouse gene pages and MGI Disease Ontology Browser pages link to Alliance disease pages.
June 5, 2017
This MGI release provides updates to the Disease Ontology (DO) Browser. The browser pages now include a graphical view of the DO. This view makes it easy to trace all paths from a term back to the root node of the ontology. Users may navigate up or down the tree by clicking on a term in the graph view. The DO Browser's Genes and Models tabs now include counts of the associated human and mouse genes and all mouse models for the disease, respectively.
Last year, human OMIM disease-to-phenotype relationships from the Human Phenotype Ontology (HPO) were integrated into the Human - Mouse: Disease Connection (HMDC). This release debuts the MGI Human Phenotype Ontology (HPO) Browser. You can either browse or search the HPO Browser to view terms, definitions, and term relationships in a hierarchical display. Selected terms in the HPO Tree View link to a Human - Mouse Disease Connection query for the term and displays the human diseases and the high-level human phenotype terms associated with the term, the human genes associated with those diseases and their mouse orthologs. With this release, the number of human diseases annotated to HPO terms increased due to the addition of Orphanet disease-to-phenotype relationships from the Human Phenotype Ontology (HPO).
May 15, 2017
Additional lacZ knock in reporter data from the International Mouse Phenotyping Consortium (IMPC) have been imported into GXD. This set now comprises data for 1,112 targeted mutants, an increase of 468 mutants. It includes 39,510 images and their 44,551 annotated results, obtained from embryonic day 12.5 and postnatal adult specimens. These data are fully integrated into GXD, allowing them to be searched in context of all other gene expression data in GXD. The entire set can be viewed at reference J:228563.
May 1, 2017
This release includes embryonic phenotype data from the Deciphering the Mechanisms of Developmental Disorders (DMDD) consortium. All of the DMDD mouse lines are derived from IMPC EC cells or CRIPSR lines. For an example, see this Allele Detail page.
Included in this release are redesigns to the Mammalian Phenotype (MP), Gene Ontology (GO), and the Adult Mouse Anatomy Browsers.
MGI now includes C57BL/6J contig sequences for MGI markers that are located on contigs that are unlocalized and unplaced on the genome assembly. You can query by these contig sequences and return all associated markers. Details of a marker's location within a contig are provided in notes on Gene Detail pages in the Location & Maps section. As an example, see the Spry3 Gene Detail page.
March 13, 2017
Disease Ontology (DO) is incorporated into MGI.
The Disease Ontology (DO) is a community effort to provide standard terms for annotating phenotypic data. It is a hierarchical ontology, built on a Directed Acyclic Graph (DAG) structure, that integrates vocabularies from MeSH, ICD, NCI's thesaurus, SNOMED, UMLS, Orphanet, EFO and OMIM. Its hierarchical structure permits a range of detail from high-level, broadly descriptive terms to low-level, very specific terms. This range is useful for annotating mouse model data to the level of detail known and for searching for this information using either broad or specific terms as search criteria.
Existing MGI mouse human disease model annotations are now being translated to DO terms. You can use the MGI Disease Ontology Browser to navigate the ontology and see associated genes and mouse models. The genes and models tabs for higher level terms show all data for all of the more specific child terms. The MGI Quick Search field, Human - Mouse: Disease Connection, and other Query Forms' Phenotype / Disease field, support searches of the DO.

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB), Gene Ontology (GO)
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