← Older revision

Revision as of 07:23, 27 October 2015

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[[Media:BioDB TR 20151027.jpg]]

[[Media:BioDB TR 20151027.jpg]]

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*** Our terms are different, we have 2 of the same terms. the 2010 database is more recent and if any updates were made that would explain any discrepancies.   

+

* Our terms are different, we have 2 of the same terms. the 2010 database is more recent and if any updates were made that would explain any discrepancies.   

* One of the things you can do in MAPPFinder is to find the Gene Ontology term(s) with which a particular gene is associated. First, in the main MAPPFinder Browser window, click on the button "Collapse the Tree". Then, you can search for the genes that were mentioned by Merrell et al. (2002), VC0028, VC0941, VC0869, VC0051, VC0647, VC0468, VC2350, and VCA0583. Type the identifier for one of these genes into the MAPPFinder browser gene ID search field. Choose "OrderedLocusNames" from the drop-down menu to the right of the search field.  Click on the GeneID Search button.  The GO term(s) that are associated with that gene will be highlighted in blue. '''List the GO terms associated with each of those genes in your individual journal.   

* One of the things you can do in MAPPFinder is to find the Gene Ontology term(s) with which a particular gene is associated. First, in the main MAPPFinder Browser window, click on the button "Collapse the Tree". Then, you can search for the genes that were mentioned by Merrell et al. (2002), VC0028, VC0941, VC0869, VC0051, VC0647, VC0468, VC2350, and VCA0583. Type the identifier for one of these genes into the MAPPFinder browser gene ID search field. Choose "OrderedLocusNames" from the drop-down menu to the right of the search field.  Click on the GeneID Search button.  The GO term(s) that are associated with that gene will be highlighted in blue. '''List the GO terms associated with each of those genes in your individual journal.   

* VC0028 GO terms: metabolic process, metal ion binding, iron suliron-sulfur cluster binding, 4 iron, 4 sulfur cluster binding, catalytic activity, lyase activity, dihydroxy-acid dehydratase activity, cellular amino acid biosynthetic process, branched chain family amino acid biosynthetic process

* VC0028 GO terms: metabolic process, metal ion binding, iron suliron-sulfur cluster binding, 4 iron, 4 sulfur cluster binding, catalytic activity, lyase activity, dihydroxy-acid dehydratase activity, cellular amino acid biosynthetic process, branched chain family amino acid biosynthetic process

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 ** ''' Top 10 Gene ontology Terms.'''
 ***glucose catabolic process, hexose catabolic process, glycolysis, monosaccharide catabolic process, cytoplasm, alcohol catabolic process, cellular carbohydrate catabolic process, glucose metabolic process, protein folding, and hexose metabolic process
-** '''Compared the list with Trixie.  The terms are the same but the relative amount of results are different because of the amount of data added or retracted during the time between the 2008 and 2010 data sets.
+** Compared the list with Trixie.  The terms are the same but the relative amount of results are different because of the amount of data added or retracted during the time between the 2008 and 2010 data sets.
 [[Media:BioDB EY20152710.png]]

Eyanosch Week 8 - Revision history

Eyanosch: /* MAPPFinder Procedure */

Eyanosch: /* MAPPFinder Procedure */