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  • Dieses Wiki ist zunächst einmal anderen Wikis sehr ähnlich, z.B. Wikipedia, da es auf die selbe Software, MediaWiki aufbaut.
  • Allerdings ist dies ein Projekt-spezifisches Wiki, ist also speziell für den SFB eingerichtet:
    • Alle SFB-Teilnehmer sollen das Wiki frei lesen und schreiben können, um Informationen auszutauschen.
    • Nicht-SFB-Teilnehmer haben momentan weder Schreib noch Lese-Zugriff. Unser Ziel ist es jedoch, ausgewählte Informationen auch für Externe anzubieten.
    • Ziel ist es, einen Konsens zu den Themen im SFB zu finden.
    • Informationen sollen leicht auffindbar sein, z.B. über die Suchfunktion rechts oben.
    • Ausführliche Informationen zur Verwendung eines solchen Wikis finden sich z.B. hier MediaWiki User's Guide.
  • Zusätzlich besitzt dieses Wiki die Möglichkeit der Wissensmodellierung
    • Dazu können Konzepte (Special:Categories) und Beziehungen (Special:Properties) erstellt werden.
    • Mittels der Konzepte und Beziehungen können strukturierte Informationen über eine Domäne (z.B. den SFB, die Leberchirurgie, die Herzchirurgie) erstellt und in einer Wissensbasis (Datenbank) gespeichert werden.
    • Informationen in dieser Wissensbasis können anschließend nicht nur gesucht, sondern exakt abgefragt werden, z.B. durch Special:Ask.
    • Ausführliche Informationen zur Verwendung dieser Funktionalität von SurgiPedia finden sich z.B. hier Semantic MediaWiki documentation.

Frequently Asked Questions

How should we issue questions to the knowledge base?

  • As a starting point, you can formulate your questions as of type Category:Question to the Knowledge Base
  • After you have formulated a question to the knowledge base you may want to issue that query to the knowledge base.
  • Queries can be issued to the SFB triple store or an embedded triple store loaded dynamically.
  • The triple store can be loaded using the constants in the question (e.g., using LDSpider).
  • The triple store may only mention the uris of data but not the data itself, e.g., pictures etc. Such data needs to be downloaded, separately.
  • The triple store may need reasoning or materialisation to answer the questions.
  • For more information, see How to issue questions to a triple store via HTTP?

How should we formulate questions to the knowledge base?

  • As a starting point, you can formulate your questions as of type Category:Question to the Knowledge Base
  • Eventually, a question should be represented using SPARQL
  • Constants (objects, categories, properties) in the question should preferably be taken from Surgipedia, since such objects, categories, properties are well-defined and part of the shared vocabulary within SFB.
  • For issuing questions to the knowledge base, see the respective "frequently asked question" (above).

If I upload files to the knowledge base, what format is most suitable?

  • Generally: The more structured the files uploaded, the more information can be automatically extracted from the files and the more information can be queried from the knowledge base.
  • Note, the same information can be available in the SFB Knowledge Base in different formats. Thus, one can start storing information in one (already available) format and later start providing a more machine-readable format.
  • An ordered list of favourite data formats (see [1] for a list):
  1. RDF (the most structured/interoperable one)
  2. XML
  3. CSV / ARFF
  4. XLS
  5. Office Open XML -
  6. RTF -
  7. DOC
  8. PDF
  9. JPEG / PNG ...
  10. ...

How should I make data available for the knowledge base?

  • Small sets of data that can be used by any SFB member: Use Surgipedia
  • Larger datasets that can be used by any SFB member: Use XNAT
  • More specific datasets that should als be available to a wider community (might be other research projects or the public in general): Use Linked Data
  • Temporarily, data can be stored in the SFB Triple Store using SPARQL INSERT Queries.

How should pages ideally be named?

Where do I get help with programming software using the knowledge base?

Can I propose ideas?

Yes, you can: Either write an email to SFB Knowledge Base Mailing List or add something to Request For Change.

How do I create an object, a category, or a property in Surgipedia?

  • Object: Search for the object via the text field in the upper right corner. If it exists, already, extend the page. If it does not exist, click on "create page" and start describing the object. Afterwards click "save".
  • Category: Every category's name starts with "Category:", e.g., "Category:Disease". To create a new category, search for its name. If it exists, extend the page. If it does not exist, click on "create page" and start describing the category. Find additional information at [2].
  • Property: Every property's name starts with "Property:", e.g., "Property:has website". To create a new property, search for its name. If it exists, extend the page. If it does not exist, click on "create page" and start describing the property. For more information about properties, see [3].

Why is there a mixture of German and English in Surgipedia?

  • At the 1. Retreat we decided to have the Surgipedia platform in English. If possible, also all Pages, Categories and Properties should have English names.
  • However, often it is much quicker and easier to describe something in your mother tongue. Since content is more important than consistent language, we want to allow that. If you mind, please help us translate.

Why can I not upload an OWL or RDF file?

  • Error: File extension ".owl" does not match the detected MIME type of the file (application/xml).
  • For now, you need to rename the file to *.xml in order to upload it. In case your ontology is represented in another format than XML, please let I01 know.

How secure is Surgipedia?

  • The software underlying Surgipedia, MediaWiki is not designed for high security.
  • See SurgiPedia:General disclaimer for our policy of how to use Surgipedia.
  • Pages inside Surgipedia will only be visible to someone having an account.
  • Uploaded files in Surgipedia can be opened by anyone having the link. For files that should only be accessible by SFB people, please use XNAT.

What pages can be seen without logging in?

How do I get an account / login?

  • Click on "Log in" in the right upper corner. Click on "request account". Add descriptions and send request.
  • You will get an email to confirm your email address. Please click on the link.
  • Then, an administrator of SurgiPedia will be notified to check your request and confirm your account (if this process takes several days and you do not get an answer, please contact the administrators, directly.
  • Then, you will get an email with your password (at first login, you have to change this password).

What to do if I get "confirmation error"

  • Such an error happens if you directly go to "request account"
  • Please first go to start page of Surgipedia and click on "log in" and "request account"
  • Then, the account creation process will work properly

Where do I get help?

How do I generally use this wiki?

  • Editing help – quick overview of important editing syntax, internal page

More detailed documentation about this kind of wiki:

How do I get a notification if a page changes?

  • Go to Special:Preferences and activate "E-mail me when a page on my watchlist is changed" (available at the lower part of the first preferences page), save your preferences.
  • Go to any page you want to monitor and click on "watch" in the link bar in the upper right corner of the page.
  • Every time the page is changed, you will get an email notification.

Wie stelle ich Bilder auf Wikiseiten dar?

Current problems

This is a wiki. Please add new problems to the list!
  • The patient template contains several "has others" properties, which however are not specific to a certain patient information.
  • Medication history currently is missing.
  • ...please add more...