Attention GO users!! The Gene Ontology Consortium would love to hear your feedback about GO. Please assist the GO project by completing a short survey. The results will help us learn more about how you use GO, how GO can serve your research needs better, and will aid in preparation for the upcoming GO grant renewal. Surveys completed by November 15th 2015 will be eligible for a prize drawing for a $400 Apple Store voucher. Thanks in advance for your time!
Steinernema genomes in WormBase Parasite
Genomes for the entomopathogenic nematode Steinernema carpocapsae and four congeners–S. scapterisci, S. monticolum, S. feltiae, and S. glaseri are now available in WormBase Parasite. Check out the paper describing these genomes.
New Textpresso for OMIM!
The Textpresso project serves the biomedical research community by providing full text searches of the C. elegans published literature, as well as other model organism literatures. Recently Textpresso for Online Mendelian Inheritance in Man (OMIM), was developed, this contains approximately 25,000 entries from OMIM. The entries are separated into their various fields: eg., clinical synopsis (CS), number (NO), references (RF), creation date (CD), etc. One can use Textpresso search capabilities to search for various diseases, genes, etc. within OMIM entries. An intersection of these searches can be created with various categories that are integrated as part of Textpresso, for a more refined targeted search. Those categories are: gene ontology (GO), sequence ontology (SO), human anatomy (UBERON) and human phenotype ontology (HPO). Entries are downloaded from the OMIM website and updated for Textpresso weekly.
New release of WormBase: WS249
We have updated WormBase to the newest version of the website and database, WS249.
You can find the release notes here.
ParaSite Release 3
We are pleased to announce the third release of WormBase ParaSite, the home for parasitic worm draft genomes and genomic data in WormBase.
This release includes two new annotated genomes, taking the total number of nematode and flatworm genomes in WormBase ParaSite to 99, representing 90 species. The new genomes are:
- Echinococcus canadensis (PRJEB8992)
- Loa loa (PRJNA246086)
This release also includes a REST API, providing language-neutral programmatic access to ParaSite data via a RESTful interface (http://parasite.wormbase.org/api/), and an improved BLAST search which is faster and has no limit on the number of species that can be BLASTed against (http://parasite.wormbase.org/Tools/Blast).
Finally, in this release we are displaying tapeworm RNASeq data for the species Echinococcus granulosus, Echinococcus multilocularis and Hymenolepis microstoma (as example). We will be including more transcriptomic data sets in upcoming ParaSite releases so if you would like to suggest datasets you would like to see displayed please get in touch!