What's New!

New TGD Wiki paper

Posted on 2012-03-21 by ciliate-curator

A new article about TGD Wiki has been published in Database: The Journal of Biological Databases and Curation. Enjoy!

2013 FASEB Ciliate Molecular Biology Conference

Posted on 2012-01-31 by ciliate-curator

Please mark your calendar! The 2013 FASEB Ciliate Molecular Biology Conference will be held July 7-12, 2013 at the Steamboat Grand Resort (Steamboat Springs, Colorado). Information about the conference location can be found at the FASEB web site.

Sidebar Functions

Posted on 2011-09-29 by ciliate-curator

The Recent Activity section of the left sidebar now shows the latest three gene pages edited by members of the community, including updates to gene names, GO annotations, and the list of related papers. Recent Papers shows the last three articles added to our index of Tetrahymena papers (downloaded regularly from Pubmed). Authors, please take a moment to link new papers to the genes they describe.

BLAST updated

Posted on 2011-09-23 by ciliate-curator

We have updated the BLAST server and its collection of sequence datasets. The new BLAST software is capable of translating both query and database sequences using a variety of genetic codes. (Please note that Tetrahymena uses the "Ciliate Nuclear (6)" genetic code to translate mRNAs.) The most recent (v.2008) Protein, CDS, Assembly, and Trace sequences are currently available for search. For the time being, we also have a link to the legacy BLAST server at Stanford, which contains the v.2004 sequences. Please let us know if you find the new BLAST server lacks tools or datasets you found useful at the legacy server, which will soon be decommissioned.

Links to TetraFGD

Posted on 2011-09-23 by ciliate-curator

The Expression Profile section of each gene page has been updated to link with the redesigned Tetrahymena Functional Genomics Database. TetraFGD shows RNA-seq, microarray, and gene network profiles for T. thermophila genes.

Preliminary Ich genome sequence browser

Posted on 2011-05-19 by ciliate-curator

The preliminary annotation of the Ichthyophthirius multifiliis genome is now available for browsing and keyword searching at the ciliate.org genome browser. We will update the site with the official gene names and models once they have been finalized for publication. The Ich genome browser can be accessed directly at http://ciliate.org/gb2/gbrowse/ich.

Genome Browser updated

Posted on 2011-05-19 by ciliate-curator

The genome browser has been updated to GBrowse 2 and is now showing the v.2008 annotation of the Tetrahymena genome sequence. We will maintain a link on the gene pages to the v.2004 browser until we are able to recreate the useful tracks available there, but please note that its sequences and gene models may be out of date. The TGD Wiki gene pages and v.2008 browser both show the current T. thermophila annotation.

TGD Wiki gets a new look!

Posted on 2011-02-04 by ciliate-curator

The TGD Wiki website has been redesigned. Don't worry, all your favorite genes and tools are still here - but now it should be even more enjoyable to work on them! Thanks for this update go out to our newest programmer, Mike Bowen.

Article on TGD Wiki

Posted on 2010-10-22 by ciliate-curator

Bradley University has featured TGD Wiki, a collaborative project between the Biology and Computer Science departments, in a Spotlight news article.

Registration is now open!

Posted on 2010-10-01 by ciliate-curator

Tetrahymena researchers who wish to contribute to the community annotation effort can now register and begin editing TGD Wiki. Simply send the information requested on the User Registration page to ciliate-curator. Once your lab receives a user name and password, visit the new Wiki Edit Guide to see what kinds of annotations can be made to your favorite Tetrahymena genes.

2011 FASEB Conference

Posted on 2010-09-10 by ciliate-curator

Just announced: The 2011 FASEB Ciliate Molecular Biology Conference will be held at the Orthodox Academy of Crete (Kolymvari, Chania, Greece), from July 11-15, 2011. Details are available here.

References updated

Posted on 2010-09-10 by ciliate-curator

We have loaded citation information from Pubmed for Tetrahymena papers published in the last three years. From this point on, TGD Wiki will be updated regularly to include new papers that become available through Pubmed.

TGD Wiki is now online!

Posted on April 16, 2010 by ciliate-curator

TGD Wiki is the new hub for information about the genes and proteins of Tetrahymena. TGD Wiki currently displays the most recent Tetrahymena gene/protein sequences and functional annotations from TIGR and other sources. In order to keep the information in our database as current as possible, we will soon be inviting the members of the Tetrahymena community to add and update these annotations to reflect published research. Check back here for updates as we continue to develop and improve this website.

TGD Wiki currently offers the following features:

• Free, unrestricted read access to all available data
• Sequence and annotation data for 24,725 genes (TIGR v.2008)
• GBrowse genome browser with links to and from each gene page (TIGR v.2006)
• BLAST searching of the TIGR gene models and genome sequence (TIGR v.2006)