Difference between revisions of "Data mining:WormMart:Example 3"

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=== 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.  ===
 
=== 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.  ===
  
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*Start a new [http://www.wormbase.org/biomart/martview WormMart] query and;  
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*Start a new [http://caprica.caltech.edu:9002/biomart/martview WormMart] query and;  
 
**Select the latest database and the&nbsp;'''RNAi''' dataset<br>
 
**Select the latest database and the&nbsp;'''RNAi''' dataset<br>
  
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**In the '''Inhibits Gene''' section, select '''Gene Info (merged)''',  
 
**In the '''Inhibits Gene''' section, select '''Gene Info (merged)''',  
 
**In the '''Experiment''' section, select '''Author (merged)'''  
 
**In the '''Experiment''' section, select '''Author (merged)'''  
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*Click <span class="Apple-style-span" style="font-weight: bold;">&lt;Results&gt;</span> button&nbsp;to produce the results shown [http://www.wormbase.org/biomart/martview?VIRTUALSCHEMANAME=default&ATTRIBUTES=wormbase_rnai.default.attributes.rnai|wormbase_rnai.default.attributes.phenotype_observed_dminfo|wormbase_rnai.default.attributes.inhibits_gene_dminfo|wormbase_rnai.default.attributes.author_dmlist|wormbase_go_term.default.attributes.go_term|wormbase_go_term.default.attributes.term&FILTERS=wormbase_rnai.default.filters.phenotype_primary_name_options.%22embryonic_lethal%22&VISIBLEPANEL=resultspanel [HERE]].
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*Click <span class="Apple-style-span" style="font-weight: bold;">&lt;Results&gt;</span> button&nbsp;to produce the results shown [http://caprica.caltech.edu:9002/biomart/martview?VIRTUALSCHEMANAME=default&ATTRIBUTES=wormbase_rnai.default.attributes.rnai|wormbase_rnai.default.attributes.phenotype_observed_dminfo|wormbase_rnai.default.attributes.inhibits_gene_dminfo|wormbase_rnai.default.attributes.author_dmlist|wormbase_go_term.default.attributes.go_term|wormbase_go_term.default.attributes.term&FILTERS=wormbase_rnai.default.filters.phenotype_primary_name_options.%22embryonic_lethal%22&VISIBLEPANEL=resultspanel [HERE]].
  
 
[[Data mining:WormMart:Example 2|&lt;-Last]] ... [[Data mining:WormMart|Index of Examples]]
 
[[Data mining:WormMart:Example 2|&lt;-Last]] ... [[Data mining:WormMart|Index of Examples]]

Latest revision as of 10:42, 31 January 2013

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, Enable the Limit to Phenotype Primary Name 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,
    • Within the Go Term's Filter section, Enable the Limit to GO Term ID(s) filter, and enter GO:0004674 (protein serine/threonine kinase activity). 



  • Within the RNAi Attribute section;
    • 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)
  • Click <Results> button to produce the results shown [HERE].

<-Last ... Index of Examples

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