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.
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 the DIOPT orthology data from the Alliance of Genome Resources 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.
Known Issues: the circRNAs failed mapping so sequence and genomic position are not available for this release, but will be in the WS277 release.
WormBase is happy to announce that the microPublication Biology journal is now fully listed in PubMed!
To make articles easier to cite and discover, every microPublication now receives a PubMed ID, a PubMed Central ID, and a DOI. If you have published with us in the past, consider updating your citations. Indexing is retroactive for all past articles.
You can see microPublications in PubMed by browsing the full index at
PubMed Central. Or look for microPublications during normal searches at PubMed or PubMed Central.
We look forward to receiving more submissions!
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.
Announcing the special edition of Textpresso covering coronavirus literature– it contains 31,000 articles from the PMC open access archive.