Wikiproteins is a Wiki for Professionals. It consists of a Desktop where much functionality is concentrated and the Wiki that provides much of the underlying data.
- The Wiki interacts with the Knowlet space where you can browse the conceptual environment of each concept.
- The professional side bar enables you to navigate between the normal Wiki pages and the Wikidesktop with its advanced semantic support technology.
First you can search in the regular Wiki-way for a concept you are interested in. When the concept is included in Wikiproteins, the relational record describing the 'DefinedMeaning' of the term you entered will show. In case your term is ambiguous, i.e. multiple homonyms exist, all known DefinedMeanings will be shown. When you select 'Highlight terms in page' in the side bar, the concept recognition software will highlight in green the terms that could be mapped to a concept in the OmegaWiki system.
Each highlighted term is preceded by a click box. When selected, the concepts will be grouped with other selected concepts in the page for further exploration. When you click 'Knowlet space' in the side bar menu, the (combined) Knowlet of the the concept(s) will be shown. A Pubmed search (AND by default) on the clicked concepts is also possible. Be aware that clicking too many concepts will usually lead to 0 hits in Pubmed.
Each field can be edited by registered users but if the original is from an authoritative source like for instance UniProtKB or UMLS, you will have to copy the record to the Community Database first, so that other colleagues can always see the latest curated knowledge and your additions will be viewed separately and become editable for peers straight away.
In case there is a concept of your special interest on the page and it is apparently not highlighted by the concept recognizer, please select that expression in the text. It will now show up in the 'Create new page' box in the side bar.
Please be aware of the following before creating new pages: All approved (highlighted) terms (language expressions) have their own page in the terminology system. That a term is not highlighted could be due to one of the following reasons:
- The concept recognizer might have missed the expression because there was a spelling or syntax error. In that case, please correct the term in the wiki page via the normal editing funtionality
- If the term is still not recognized, it might be a syntax error or the concept recognizer has suppressed the term because it is ambiguous and there was not enough context to positively identify the concept. Highlighting the correct term and pressing the 'create new page' button will yield the page for that expression if it already exists.
- In case the expression is highlighted because it is not yet recorded as a concept in the system, please be careful before you mark it as a new concept. First you might check if you may have found a new synonym, while the actual concept it refers to is already in the database. For example, [Human Herpes Virus 4] might be in the database and the synonym [EBV] may be missed.
So, to prevent redundancy in the database, please always think about logical synonyms of a new term that you are about to enter and check the database for those terms first. If searching for a synonym known to you leads to an existing page for the correct Defined Meaning of your term, you can simply add the synonym to the synonym list of that concept. Obviously you are also invited to improve the information on that concepts