Manager 19February2014: Difference between revisions

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==AmiGO2 and New Website==
==AmiGO2 and New Website==
* Status of new website and AmiGO2 ? Do we plan to have the new site site ready for the SAB meeting in March ? What else do we need to have done before it's production-ready?
* Status of new website and AmiGO2 ? Do we plan to have the new site site ready for the SAB meeting in March ? What else do we need to have done before it's production-ready?
PDT: Any plan to perform user test for the website and get feedback?
Jane: There is a user experience team at EBI. We can ask them to help.
PDT asked whether they need to free up some resource to this.
Jane:  Will chat with them next week
PS: They probably can just spend a day or even an hour on it to identify glaring issues, since they are experts.


==GAF-to-GPAD/GPI Conversion Scripts==
==GAF-to-GPAD/GPI Conversion Scripts==

Revision as of 12:29, 19 February 2014

AmiGO2 and New Website

  • Status of new website and AmiGO2 ? Do we plan to have the new site site ready for the SAB meeting in March ? What else do we need to have done before it's production-ready?

PDT: Any plan to perform user test for the website and get feedback? Jane: There is a user experience team at EBI. We can ask them to help. PDT asked whether they need to free up some resource to this. Jane: Will chat with them next week PS: They probably can just spend a day or even an hour on it to identify glaring issues, since they are experts.

GAF-to-GPAD/GPI Conversion Scripts

  • Are these publicly available? If so, where?

Follow-up from MBInfo

Dear Rachael,

My name is Steven Wolf and I am the managing editor for the MBInfo Wiki.

Firstly, thank you for taking the time to look at our resource and for considering our proposal for future collaboration.

Currently we have 50 pages that are mapped to GO terms. These range in size from around 500 words to over 5000 words. We also have a further 10 pages being prepared for the website and once we have established the website as a wiki to the scientific community we expect to increase that number substantially.

Using generic URLs may be possible and I will discuss this with our web application developer when he returns from his vacation (which will be in a couple of weeks). We had hoped that we could obtain DOIs, or a similar indexing tool, for specific webpages however this does not appear possible. eISSN and other forms of registration appear to be website wide only. So we are still working on this solution.

The use of topics is needed as we are primarily an educational resource and a wiki (a wiki in the sense that anyone can log in and edit the site content, however all edits are vetted by the editors and PIs here at MBI before being integrated into the site). All biological processes and components are discussed within the context of 4 main topics (Cellular Organization, Cytoskeletal Dynamics, Mechanosignaling and Synthesis).

In some cases our pages cannot be mapped to a GO term as a suitable GO term does not exist. For example, http://www.mechanobio.info/topics/cytoskeleton-dynamics/go-0071437/Invadopodium-Assembly. In this case there is no Biological Process for Invadopodium Assembly.

Similarly, there are no GO terms related to mechanotransduction as a biological process. Given MBInfo describes processes relevant to mechanobiology, (any process or component that results from or contributes to mechanical force detection and transduction) we expect to encounter more instances where a lack of suitable GO term leave us having to use our own page naming. That said, in most instances we look for parent GO terms and write the information under these broader terms. This is done as long as it matches the overall style and structure of the site.

Thank you and I look forward to more discussion on this in the future.