Difference between revisions of "Missing PMIDs"

From WormBaseWiki
Jump to navigationJump to search
Line 15: Line 15:
  
 
As of 9/1/11, there were ~1000 WBPaper objects that did not have a PMID.  We know that some paper objects in WB will likely never have a PMID, for example corrections and errata, but if there are papers that *do* have a missing PMID, then we want to add the PMID wherever possible.  
 
As of 9/1/11, there were ~1000 WBPaper objects that did not have a PMID.  We know that some paper objects in WB will likely never have a PMID, for example corrections and errata, but if there are papers that *do* have a missing PMID, then we want to add the PMID wherever possible.  
 +
 +
Strategy: Using PubMed XML file of Journals, compile a list of WBPaper objects that lack a PMID but for which the corresponding journal's Current Indexing Status is "Currently indexed for MEDLINE".
 +
 +
<IndexingSourceList>
 +
        <IndexingSource>
 +
            <IndexingSourceName IndexingTreatment="Full" IndexingStatus="Currently-indexed">Index medicus</IndexingSourceName>
 +
            <Coverage>v1n1, 2006-</Coverage>
 +
        </IndexingSource>
 +
        <IndexingSource>
 +
            <IndexingSourceName IndexingTreatment="Full" IndexingStatus="Currently-indexed">MEDLINE</IndexingSourceName>
 +
            <Coverage>v1n1, 2006-</Coverage>
 +
        </IndexingSource>
 +
        <IndexingSource>
 +
            <IndexingSourceName IndexingTreatment="Full" IndexingStatus="Currently-indexed">PubMed</IndexingSourceName>
 +
            <Coverage>v1n1, 2006-</Coverage>
 +
        </IndexingSource>
  
  
 
Back to [[Paper Pipeline]]
 
Back to [[Paper Pipeline]]

Revision as of 18:11, 25 October 2011

Objectives:

1) Add missing PMIDs to WBPaper objects wherever possible

2) When papers have not been indexed by PubMed, add that information to postgres along with details of indexing; display on paper editor

3) When no PMID is found, check and correct bibliographic errors in WBPaper objects

4) Where possible, add doi's for papers not indexed by PubMed

5) If time permits, replace journal titles with standard NLM journal abbreviations


1) Add missing PMIDs to WBPaper objects wherever possible

As of 9/1/11, there were ~1000 WBPaper objects that did not have a PMID. We know that some paper objects in WB will likely never have a PMID, for example corrections and errata, but if there are papers that *do* have a missing PMID, then we want to add the PMID wherever possible.

Strategy: Using PubMed XML file of Journals, compile a list of WBPaper objects that lack a PMID but for which the corresponding journal's Current Indexing Status is "Currently indexed for MEDLINE".

<IndexingSourceList>

       <IndexingSource>
           <IndexingSourceName IndexingTreatment="Full" IndexingStatus="Currently-indexed">Index medicus</IndexingSourceName>
           <Coverage>v1n1, 2006-</Coverage>
       </IndexingSource>
       <IndexingSource>
           <IndexingSourceName IndexingTreatment="Full" IndexingStatus="Currently-indexed">MEDLINE</IndexingSourceName>
           <Coverage>v1n1, 2006-</Coverage>
       </IndexingSource>
       <IndexingSource>
           <IndexingSourceName IndexingTreatment="Full" IndexingStatus="Currently-indexed">PubMed</IndexingSourceName>
           <Coverage>v1n1, 2006-</Coverage>
       </IndexingSource>


Back to Paper Pipeline