New link for all chapters of WormBook in GENETICS!

GENETICS and G3 are now published by Oxford University Press. WormBook is prominently featured on the GENETICS homepage, and all WormBook chapters that have been published in GENETICS  are now accessible on the Oxford site.  There are 28 superb chapters already published spanning many areas of worm biology.  And there are many more in the pipeline, which you’ll see announced here as they are published. 

G3 homepage:  https://academic.oup.com/g3journal

GENETICS homepage:  https://academic.oup.com/genetics

WormBook in GENETICS series homepage:  https://academic.oup.com/genetics/pages/wormbook

New version of the Alliance of Genome Resources

A new release (4.1.0) of the Alliance of Genome Resources (Alliance) is now available. Search for your favorite gene and find harmonized data such as gene function, disease models, phenotypes, expression and many more across orthologous model organisms and human. Read about the new data and features in the release notes.

SimpleMine Update: Biotype, GO term, RNAi clone and more

We have added new data fields to SimpleMine, a batch download tool for essential gene information. Users can now access biotype, GO term, and RNAi clones through this simple web interface.

We also added more information to previously existing data fields. All references, including books, reviews, meeting abstracts, and primary research articles, are now listed in the Reference field. For genetic map position, we display error rates of the genetic mapping data. In addition to all “live” gene objects, users can now search for pseudogene or “suppressed” gene objects. 

Changes to the web interface include: improved performance, species-specific or mixed-species searches and a search button for all genes in one species. There are 32 data fields in SimpleMine, organized into five categories so that users can quickly select them. 

Note that WormBase SimpleMine provides essential information for genes in nine nematode species. There is a prototype of the SimpleMine tool for the Alliance of Genome Resources with data related to human, mouse, rat, zebrafish, fly, yeast, and worm (C. elegans only):  https://www.alliancegenome.org/prototypes

Accessing the WormBase FTP site

You may have noticed that many browsers such as Chrome, Firefox, etc., no longer support the File Transfer Protocol (FTP) to access files on remote servers. However, programs such as FileZilla offer free support of FTP. Please stay tuned as we are currently exploring solutions to make access to the WormBase FTP site easier for our users.