Changes between Version 256 and Version 257 of CuratorMeeting


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Timestamp:
Jun 27, 2012, 5:24:12 PM (9 years ago)
Author:
gomidori
Comment:

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  • CuratorMeeting

    v256 v257  
    4747
    4848'''Phenotype ontology''' (Midori 2012-02-29)
    49  * We've decided to make some phenotype terms obsolete and use conditions to capture temperature, carbon source, nitrogen source, etc. Last call to review the affected terms -- are there any that we should keep after all?
    50   * normal growth at high temperature FYPO:0000674
    51   * viable at high temperature FYPO:0000282
    52   * sensitive to cold FYPO:0000080
    53   * sensitive to high osmolarity FYPO:0000081
    54   * sensitive to high temperature FYPO:0000082
    55   * slow growth at high temperature FYPO:0000247
    56   * normal cell growth on ammonia nitrogen source FYPO:0000242
    57   * normal cell growth on proline nitrogen source FYPO:0000243
    58   * slow cell growth on ammonia nitrogen source FYPO:0000249
    59   * slow cell growth on proline nitrogen source FYPO:0000250
    60   * slow cell growth on galactose carbon source FYPO:0000251
    61   * slow cell growth on glycerol/ethanol carbon source FYPO:0000442
    62   * increased cell growth rate on glucose carbon source FYPO:0000637
    63   * slow cell growth on glycerol carbon source FYPO:0000684
    64  * update 2012-03-09: I'm now thinking of keeping just heat sensitive (FYPO:82) and cold sensitive (FYPO:80) as a practical matter -- lots of community curators/users will search for them! The rest could probably still go, converted to parent + condition(s).
    65  * update 2012-06-12 (based on discussion in May): actually still thinking about this. It's a "when to pre- or post-compose terms" question, analogous to GO terms + extensions. [wiki:PrePostComposePhenotype Thoughts in progress noted here.]
     49 * Annotations: how to represent when alleles of interest are studied with another (non-null) allele of the same gene present
     50  * email sent 2012-06-27
     51  * example: mcm2 alleles in PMID:9383050
     52   * several different mcm2-x alleles assayed on plasmids, with mcm2+, mcm2delta, or mcm2 allele cdc19-P1 on chromosome
     53 * Pre- vs post-composing terms
     54  * background (older comments):
     55   * We've decided to make some phenotype terms obsolete and use conditions to capture temperature, carbon source, nitrogen source, etc. Last call to review the affected terms -- are there any that we should keep after all?
     56    * normal growth at high temperature FYPO:0000674
     57    * viable at high temperature FYPO:0000282
     58    * sensitive to cold FYPO:0000080
     59    * sensitive to high osmolarity FYPO:0000081
     60    * sensitive to high temperature FYPO:0000082
     61    * slow growth at high temperature FYPO:0000247
     62    * normal cell growth on ammonia nitrogen source FYPO:0000242
     63    * normal cell growth on proline nitrogen source FYPO:0000243
     64    * slow cell growth on ammonia nitrogen source FYPO:0000249
     65    * slow cell growth on proline nitrogen source FYPO:0000250
     66    * slow cell growth on galactose carbon source FYPO:0000251
     67    * slow cell growth on glycerol/ethanol carbon source FYPO:0000442
     68    * increased cell growth rate on glucose carbon source FYPO:0000637
     69    * slow cell growth on glycerol carbon source FYPO:0000684
     70  * update 2012-03-09: I'm now thinking of keeping just heat sensitive (FYPO:82) and cold sensitive (FYPO:80) as a practical matter -- lots of community curators/users will search for them! The rest could probably still go, converted to parent + condition(s).
     71  * update 2012-06-12 (based on discussion in May): actually still thinking about this. It's a "when to pre- or post-compose terms" question, analogous to GO terms + extensions. [wiki:PrePostComposePhenotype Thoughts in progress noted here.]
    6672 
    6773 * Curation tool related, progress towards launch