Difference between revisions of "November 25, 2009 - Sequence Curation Flags"

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==Pipelines and options for flagging==
 
==Pipelines and options for flagging==
 
[http://www.wormbase.org/wiki/index.php/Caltech_documentation#SVMs_for_First_Pass_Curation SVMs]
 
[http://www.wormbase.org/wiki/index.php/Caltech_documentation#SVMs_for_First_Pass_Curation SVMs]
*Curated papers are the best training set.  Flagged papers can be used, if flagging was consistent.
+
*Curated papers are the best training set.  Flagged papers can be used, if flagging was generally consistent.
 
*[http://tazendra.caltech.edu/~postgres/cgi-bin/curation_status.cgi Curation status form] has lists, but not completely up-to-date.  
 
*[http://tazendra.caltech.edu/~postgres/cgi-bin/curation_status.cgi Curation status form] has lists, but not completely up-to-date.  
  

Revision as of 14:42, 24 November 2009

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Participants

Review sequence-related first pass flags

http://tazendra.caltech.edu/~postgres/cgi-bin/curator_first_pass.cgi

Pipelines and options for flagging

SVMs

  • Curated papers are the best training set. Flagged papers can be used, if flagging was generally consistent.
  • Curation status form has lists, but not completely up-to-date.

Textpresso

  • pattern matching
  • category searches

Author flags

  • Curators need to tell Juancarlos they'd like to receive emails when authors flag a data type.
  • Caltech needs to supply list of papers flagged since September 2009.
  • Stats on return rates as of November 12, 2009 (supplied by Juancarlos):

Since Sept 1st, we have sent out 195 requests, and gotten back 72 results (36.9%).

Since Oct 1st, we have sent out 147 requests, and gotten back 52 results (35.3%).

Since Nov 1st, we have sent out 18 requests, and gotten back 7 results (38.9%).

Current status of each flag

  1. gene symbol
    • Currently being combined with seqchange.
  2. mapping data
  3. sequence features
  4. mass spectrometry
  5. structure correction
  6. sequence change
  7. new SNPs
  8. new mutant (alleles)

Minutes, Action Items