Leishmania major Week 13 Status Report

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Contents

Import/Export GenMAPP

Name:Leishmania_major_18112013

Export Information

Uniprot: 7.42 minutes
File:UniprotXML Leishmania 05112013 Gabe Lena.xml
GO OBO: 5.96 minutes
File:Leishmania 05112013 Gabe Lena.obo-xml.gz
GOA: 0.04 minutes
File:LeishmaniaGOA 19112013 Lena Gabe.goa

Files

Newly Updates Database:File:Leishmania major 19112013 Dist.zip
Name of .gdb File:Media:LeishmaniaGDB 21112013 Lena Gabe.gdb
Fixed Microarray Data:File:L.majorCompiledRawData C 21112013.txt

Reflections

Lena Hunt

1.)We got our database to export into GenMAPP. Originally it was showing a generic database, and it wouldn't recognize the OrderedLocusNames. We fixed it in Eclipse and uploaded it to the homepage. We then successfully got GenMAPP to recognize our database. We also updated our microarray data so that the gene IDs did not have extra numbers (we used the : as a separator.) We then went through and changed all the "Error" messages with a 0 so as not to confuse GenMAPP.
2.)We managed to work through all the things that didn't work this week. At this time we are waiting for the export to complete to test gene database link and microarray data.
3.)Currently we do not have any problems we are aware of, but after a entire work session of working through problems today, I think we are prepared to work through problems that may come up in the next work session.

Gabriel Leis

  1. What worked?
  2. What didn't work?
  3. What will I do next to fix what didn't work?

GenMAPP Data

  1. Centered and Scaled the Microarray data
  2. Found the Average Fold Change
  3. Statistical Analysis: Found P-value and T-test
  4. Formatted to be compatible with GenMAPP
  5. Saved for GenMAPP as a txt file
    For more detailed procedure info see Vkuehn Week 13 for major or, for infantum see Kevinmcgee Week 13
    The files can be found under Leishmania major in the File Updates section
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