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Announcement

The Dictyostelium purpureum Web Portal is now open. Each gene has a gene page,the genome is in our blast database, and gene tracks of orthologous genes are aligned by BLASTin the D. purpureum Genome Browser. Enjoy!
Picture adapted from Jack et al. (2008), BMC Evolutionary Biology, 8:293


News

    February, 5, 2010
    We are pleased to announce that the D. purpureum web portal is now available!
    • Access the D. purpureum unassembled contigs via a main page that contains links to the Genome Browser.
    • The D. purpureum Genome Browser contains tracks of D. discoideum blast hits that link directly to the dictyBase gene page.
    • The BLAST server is now universal, meaning databases from all available genomes are accessible from one and the same page.
    • Download D. purpureum sequences and data.
    • Search the D. purpureum database for gene IDs (DPU_G0051556), sequence IDs (DPU0052289), or JGI protein IDs (146844).
    • Direct access to the D. purpureum database is provided by a link on the dictyBase front page or or from the blue menu top bar under 'Links'.
    • For D. discoideum, we added dictyExpress RNAseq links under the Expression section, see an example on the mdhA gene page.

    January, 22, 2010
    There is a nice article about John Bonner, the 'sultan of slime', including a beautiful video.


    January, 20, 2010
    We are now adding all deleted, added, or changed gene models to twitter, as soon as they are curated.


    November 6, 2009
    The Franke Dictyostelium Literature database has been updated. Release 18 contains 9455 references. We are very grateful to Jakob Franke for providing this update.


    October 21, 2009
    Applications for the US to Australia Fellowship Program close on October 31st. The program offers fellowships of up to AU$25,000 to American researchers or students wishing to undertake advanced research or study in Australia.


    October 20, 2009
    Our paper on the collaboration between dictyBase and Swiss-Prot just came out in the journal Database: Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase (Gaudet et al. 2009).


    October 8, 2009
    We now have an image of all three D. discoideum life cycles in our Pictures/Video section, kindly provided by David Brown & Joan E. Strassmann.


    September 29, 2009
    The current Featured Community Annotation is the arrH wiki page that describes the upregulation of the gene in the rblA mutant and shows its clustering with human Arfs in a dendrogram. Thanks to Harry MacWilliams for providing this data among many more of his annotations.

    For more information on Community Annotations, click here.


    September 22, 2009
    It is our pleasure to introduce Bob Dodson who recently started working with us. Bob came from a position as a Bioinformatics Analyst at the J. Craig Venter Institute and has now joined our curator team.


    September 9, 2009
    At the recent 7thWorld Congress on Alternatives & Animal Use in the Life Sciences in Rome, Robin Williams and Pierre Cosson have been interviewed by the Deutschlandfunk. The resulting radio broadcast from August 31, 2009 can be accessed here (in German).


    August 31, 2009
    dictyBase is now on Twitter, or get the RSS feed to learn what's new at dictyBase.


    August 29, 2009
    Download the new dictyBase Quick Resource Guide (PDF)

    August 19, 2009
  • Thanks to Gadi Shaulsky and Blaz Zupan, we are pleased to announce the availability of dictyExpress, an interactive, web-based exploratory data analytics application providing access to over 1,000 D. discoideum gene expression experiments from the Dictyostelium Functional Genomics Project at Baylor College of Medicine.

    A direct link to dictyExpress is also provided on many gene pages in under Links, see for example roco4. dictyExpress runs in any Flash 10-enabled web browser and requires no additional installation.

    We hope you enjoy this tool and please feel free to contact Gadi Shaulsky or Blaz Zupan with suggestions and comments.
    •

  • In response to the ever increasing amount of data we represent, and to keep it up in the future, we have done a major update on our Gene Pages. Changes include:
    • Grouping all gene related information, such as protein annotations, gene ontology, references and phenotypes into tabs on top of the gene page.
    • Individual sections on the page can be collapsed. Section settings are 'sticky', meaning the browser 'remembers' which sections were open on the last visit.
    • Sections are loaded independently, making the overall page loading faster.
    • Each tab and section contains a question mark icon that displays help hints upon click.
    • A new FASTA button allows fast access to sequences.
    • Different splice variants are accessible via sub-tabs.
    • On the new phenotype tab, strains can be ordered directly by availability by clicking on the shopping cart icon.
    • The BLAST interface has been updated; now sequences are being prefilled when accessing from the gene page or by searching for DDB or DDB_G IDs.
    • Graphics have been added to the BLAST results.
    • We incorporated protein annotations from UniProt on the new protein tab.

    Go to your favorite gene or have a look at these examples, piaA, numA.

    News Archive


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