Data mining:WormMart:Example 3

From WormBaseWiki
Revision as of 13:33, 21 May 2008 by Whs (talk | contribs)
Jump to navigationJump to search

Download the set of all RNAi experiments that resulted in an embryonic lethal (Emb) phenotype, and in which the target genes are classified as serine/threonine kinases.

  • Start a new WormMart query and;
    • Select the latest database and the RNAi dataset
  • Within the Filter section;
    • Under Phenotype Annotation, Enable the Phenotype Inc. Descendents filter, and select the embryonic lethal option,
  • Within the lower Dataset section;
    • For the Second Dataset select GO Term as we will use this dataset to filter for serine/threonone kinases,
      • In the 2'nd dataset Identification:Limit to GO Term ID(s) section, click the <browse> button to bring up a GO Term search page [HERE]
    • Type the search term serine threonine kinase into the Search box, and click <Search GO>, which brings you [HERE]
    • Looking through the result list, GO:0004674 (protein serine/threonine kinase activity) seems best,
    • Back on the MartView FILTER page, Enable the Limit to GO Term ID(s) filter, and paste GO:0004674 into the text box,
    • The above selection is shown [HERE],
    • Click <next> to proceed to the OUTPUT page.
  • On the OUTPUT page;
    • In the RNAi section, select RNAi WB ID,
    • In the Phenotype section, select Observed Phen Info (merged),
    • In the Inhibits Gene section, select Gene Info (merged),
    • In the Experiment section, select Author (merged)
    • The above selection is shown [HERE],
    • Click export to produce the results shown [HERE].

<-Last ... Index of Examples