User:Charles Matthews/LSHTM workshop 19 February 2019

Three-hour workshop at the w:London School of Hygiene & Tropical Medicine.

Useful linksEdit

Prototype algorithmEdit

Working version of a MEDRS algorithm as of workshop date, annotated, running from focus list.

#Three-layer MEDRS prototype algorithm, run on the SS focus list.

#Not federated: the whitelist and blacklist items are given on Wikidata.

#The MEDASSESS, MEDDATE and MEDREV jargon refers to section shortcuts on the MEDRS page
#i.e WP:MEDASSESS and so on.

#This is a minimalist working version of a MEDRS algorithm
#that does enough to show where the edge case whitelists and blacklists
#can be placed in a SPARQL query. 
#Those lists are only present in placeholder form with realistic data, but the
#VALUES statements can be scaled up into longer lists.

#The DOAJ requirement means no "predatory" journals would
#appear, with a caveat entered about start time of DOAJ status.

#The case analysis can incorporate more than two cases, by using a multiple UNION.

SELECT DISTINCT ?item ?itemLabel ?journalLabel

    #Layer 1: Wikidata box-ticking  
    ?item wdt:P5008 wd:Q55439927;
          wdt:P31 wd:Q7318358;
    #Allows only "review article" under MEDASSESS, so
    #doesn't allow systematic reviews tagged as such (needs path pattern).
          wdt:P1433 ?journal.
     ?journal wdt:P5115 [ ]. 
    #Tests only for the presence of the DOAJ property, but could be refined 
    #to compare publication date with the start time of DOAJ approval.
    #Missing DOAJ information means some journals may wrongly be excluded.
    #Layer 2: Case analysis for MEDDATE
    #Currently "main case" for filtering by publication date no earlier than 2014, 
    #to add "whitelist case" where MEDDATE is not applied 
    #Placeholder list of whitelist values held on Wikidata
    #Q21092296 is a test item.
    { ?item wdt:P577 ?date.
    FILTER (?date >= "2014-01-01T00:00:00Z"^^xsd:dateTime)}
    {VALUES ?item { wd:Q21092296 } }
    #Q21092296 is a review, but too old for the five-year criterion 
    #and not recognised by publication type on PubMed.
    #As a demo, it has been tagged "review article" on Wikidata.
    #Layer 3: Filter by MEDREV blacklist
    MINUS {VALUES ?item { wd:Q26746153 } }
    #Q26746153 is for a review "The Potential of Curcumin in Treatment of Spinal Cord Injury" 
    #that has been deprecated as a source by WikiMed.
    SERVICE wikibase:label { bd:serviceParam wikibase:language "[AUTO_LANGUAGE],en". }

Try it!