The Alliance of Genome Resources is a portal for data related to six of the major model organisms and human data. The Alliance has been updated to the 3.1 release and contains new features and new data. Key new features include a refined home page and an allele page that includes transgenic alleles and shows variant consequences for transcripts. The Alliance also provides a Java API for access to the data. For a complete list of 3.1 features please see the release notes.
WormBase updated to WS276
A new release of WormBase, WS276 is live on the website. Please see the release notes which contain complete information about this release.
Data changes: note that C. elegans gene descriptions in the “Overview” section of gene pages have improved orthology statements to human genes. WormBase uses theĀ DIOPTĀ orthology data from theĀ Alliance of Genome ResourcesĀ and has increased stringency by displaying only those human orthologs that have been determined by three or more methods. This should significantly improve the orthology data in WormBase which is also reflected in the gene descriptions.Ā
Known Issues: the circRNAs failed mapping so sequence and genomic position are not available for this release, but will be in the WS277 release.
Check out Venn diagrams for interaction data in WormBase
WormBase curates four different types of gene-to-gene interaction data: genetic, regulatory, physical, and predicted. These data are found in the interactions widget in each gene page. Aside from the predicted interactions, the other three types are curated with direct experimental evidence from the literature. Check out the micropublication which describes the Vennter tool. This tool is integrated into the interactions widget on WormBase gene pages and allows the visualization and analyses of interaction data.
Textpresso for coronovirus
Announcing the special edition of Textpresso covering coronavirus literature– it contains 31,000 articles from the PMC open access archive.
Model Organism research data related to COVID-19 at the Alliance
The Alliance of Genome Resources has been updated to the 3.0.1 release with a new resource for COVID-19 relevant model organism research data. Check it out!