Difference between revisions of "Getting Papers into WormBase"

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(New page: From Kimberly: *This is how I've been uploading papers as of ~February 2009: **Every day, I go to [http://www.ncbi.nlm.nih.gov/pubmed/ PubMed] and perform a search using the keyword elega...)
 
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*This is how I've been uploading papers as of ~February 2009:
 
*This is how I've been uploading papers as of ~February 2009:
**Every day, I go to [http://www.ncbi.nlm.nih.gov/pubmed/ PubMed] and perform a search using the keyword elegans.
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**Every day, an automated script accesses [http://www.ncbi.nlm.nih.gov/pubmed/ PubMed] to perform a search using the keyword elegans.
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**The results of this search are presented in the [http://tazendra.caltech.edu/~postgres/cgi-bin/wbpaper_editor.cgi wbpaper_editor.cgi]. 
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**To enter new papers, select your name from the curator list, scroll down to the bottom of the page, and click on the link that says, 'Enter New Papers!'
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**The New Papers page lists the PMID and abstract for each of the returned papers.  Alongside each of the abstracts is a radio button where a curator can elect to accept or reject the paper. 
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**Papers that are accepted will be subsequently processed and receive a WBPaper ID.
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**The PMIDs for rejected papers are stored in a file (/home/postgres/work/pgpopulation/wpa_papers/pmid_downloads/rejected_pmids) to be used as a negative training set for machine learning approaches to paper identification (triage).
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*Papers that I accept:

Revision as of 14:35, 20 May 2009

From Kimberly:

  • This is how I've been uploading papers as of ~February 2009:
    • Every day, an automated script accesses PubMed to perform a search using the keyword elegans.
    • The results of this search are presented in the wbpaper_editor.cgi.
    • To enter new papers, select your name from the curator list, scroll down to the bottom of the page, and click on the link that says, 'Enter New Papers!'
    • The New Papers page lists the PMID and abstract for each of the returned papers. Alongside each of the abstracts is a radio button where a curator can elect to accept or reject the paper.
    • Papers that are accepted will be subsequently processed and receive a WBPaper ID.
    • The PMIDs for rejected papers are stored in a file (/home/postgres/work/pgpopulation/wpa_papers/pmid_downloads/rejected_pmids) to be used as a negative training set for machine learning approaches to paper identification (triage).
  • Papers that I accept: