Changes between Version 19 and Version 20 of PhenotypeConditions


Ignore:
Timestamp:
Dec 21, 2011, 6:51:47 PM (10 years ago)
Author:
antonialock
Comment:

--

Legend:

Unmodified
Added
Removed
Modified
  • PhenotypeConditions

    v19 v20  
    77''Legacy syntax --> annotation_extension=condition(in_minimal_media)''
    88
    9 ||condition||synonyms||explanation||
    10 ||plasmid_expression_repressed||chromosomal copy deleted and gene is instead expressed from a repressable plasmid||
    11 ||in_rich_media||YE etc media||
    12 ||in_high_[glucose]||High [glucose], otherwise MM||
    13 ||in_minimal_media||MM media and derivatives||
    14 ||in_glycerol_carbon_source||||
    15 ||at_high_temperature||AL uses above 32 for high||
    16 ||at_normal_temperature||AL only uses this if specifying high and low temp. Perhaps it is redundant||
    17 ||at_low_temperature||AL uses below 25 for low||
    18 ||overexpression||gene product is overexpressed. Probably only used for plasmid expression||
    19 ||knockdown|| the expression of the gene product is artificially lowered||
    20 ||in vitro||deprecated - use ECO 49 instead||
    21 ||nitrogen_starvation||-||
    22 ||nitrogen_limitation||only 3 use cases dso far, need to check if "in minimal media" would be sufficient||
     9||condition||definition||example||
     10||at_high_temperature||Cultures are grown at temperatures >32 degrees C||
     11||at_normal_temperature|Cultures are grown at temperatures 25-32 degrees C||||
     12||at_low_temperature||Cultures are grown at temperatures <25 degrees C||||
     13||overexpression||gene product is overexpressed||||
     14||knockdown|| the expression of the gene product is artificially lowered||||
     15||plasmid_expression_repressed||Deprecated - use knockdown. chromosomal copy deleted and gene is instead expressed from a repressible plasmid||||
     16||in vitro||deprecated - use ECO 49 instead||||
     17||in_rich_media||YE etc media||||
     18||in_high_[glucose]||Cells are grown in 'minimal media' where the concentration of glucose is increased.||||
     19||in_minimal_media||minimal media||||
     20||in_glycerol_carbon_source||Cells are grown with glycerol as the carbon source||||
     21||nitrogen_starvation||Cultures are starved of nitrogen||||
     22||nitrogen_limitation||Deprecated + use nitrogen starvation? Nitrogen is limited||||
    2323
    2424