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Welcome to dictyBase, your central resource for the biology and genomics of the social amoeba Dictyostelium discoideum.
News
June 18, 2008
The Dictyostelium Anatomy Ontology.
We have been using a new tool in the annotation of phenotypes, the Dictyostelium Anatomy Ontology.
The Dictyostelium Anatomy Ontology was developed through a collaboration between dictyBase curators and
Jeff Williams from the University of Dundee. For more information, view the summary page we have made, or read the article we have published.
June 16, 2008
Today is the 5th anniversary of dictyBase ! We would like to thank all of you for your support, feedback, and data, which make dictyBase such a great resource even though we are the smallest of model organism databases. We look forward to continue working with all of you for many years.
It is also our pleasure to introduce our new programmer Yulia Bushmanova who is starting today. She is joining Siddhartha Basu to work on our software infrastructure.
April 3, 2008
We now host a new dictyArt page, linked from the side bar of the front page.
If you created art inspired by Dictyostelium or
you know about an artist who generates dictyArt, please contact dictyBase.
April 1, 2008
Our recent gene predictions, generated using GeneID trained on Dictyostelium curated models,
allowed us to identify 71 genes that were not predicted in the current version of the genome and are now curated in
dictyBase. Thanks to Rob Kay and Gareth Bloomfield for pointing out several of those genes. You can see the full list on the
wiki page.
We also deleted a stretch of DNA located on the floating contig C2F that was redundant with a contig located on C2,
removing 24 genes and one tRNA that had been duplicated.
March 21, 2008
dictyBase is featured in the current newsletter of the GSA (Genetics Society of America). See page 16
in this pdf.
February 20, 2008
We are pleased to announce major new data additions to dictyBase.
We have integrated the Dicty_Life analysis of
Sawai et al. (2007) that
investigates growth, wave formation, and development of REMI mutants by analysing movies taken
at different developmental stages. Strains are named in the format V*****. Strains such as
V10147 are now searchable in the general search box, and are linked to the affected
gene and associated with one
or more phenotypes. Clicking on the strain leads to the
Strain Details Page,
which in turn links to the Dicty_Life mutant movies.
These strains can also be found by searching for a phenotype, such as
aberrant aggregation.
The home page of the Dicty_Life
project, which includes links to a search by phenotype and a help page is linked as
'Mutant Movies' in our Research Tool dropdown on every dictyBase page as well as from the
Pictures/Video link on the left side bar from our home page.
We have imported a list of predicted regulatory elements kindly provided by Tomaz Curk of the
Artificial Intelligence Laboratory, Ljubljana
Slovenia. The data is available in the new 'Computationally Inferred Regulatory Elements' section
of our gene page, see for example gene ino1.
Click on any ID in that section and it takes you to the
Regulatory Region Page. The regulatory elements
can also be viewed by turning on the 'Putative TF binding site' option in the Genome browser. A smart
search for regulatory regions and information about the analysis can be found
here.
We added a Curation Status Note to the bottom of all curated Gene Pages. The note
informs users about the annotation status and the date when annotations have last been updated.
February 6, 2008
The Stock Center has added a page with
'Additional Materials' to its site.
Anybody who has additional reagents that they would like to make available to the
Dicty community, please contact us for deposition instructions.
December 17, 2007
dictyBase is now running on brand new servers. Users will notice:
- Improved Performacne
- Improved Stability
Our new servers will also make maintenance easier enabling us to bring you more enhancements in shorter time!
Additionally, we have added a new track to the Genome Browser consisting of Gene Predictions generated with Geneid using a customized training set based on Dictyostelium curated models. To see this track, select 'Geneid Repredictions' in the Tracks section of a Genome Browser page. See here, for example.
November 8, 2007
Paul Fisher has been awarded the Australian Science Prize for his
published work on
AMPK signaling and its implications
in mitochondrial disease. Read the story and the
press release! Congratulations Paul!!
September 21, 2007
Pictures of the Dicty07 meeting in Rotenburg are now available at dictyBase.
Thanks to everyone who made contributions! If you have any pictures of this event you'd like to share, send them
to dictyBase.
News Archive
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