Difference between revisions of "Heavy Metal HaterZ Files"

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(→‎Statistical Analysis Excel Sheets: Files containing averages of the data and ttests done to the data.)
(→‎GenMapp Builder: addde note)
 
(21 intermediate revisions by 4 users not shown)
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*Appropriate way to title files:  
 
*Appropriate way to title files:  
 
**FileName_YYYYMMDD_HMH
 
**FileName_YYYYMMDD_HMH
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===Gene Database===
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*[[File:So-Std_HMH_20151214.zip]]
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===Initial Flow Chart===
 
===Initial Flow Chart===
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===GenMapp Builder===
 
===GenMapp Builder===
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*Note:This is now outdated.
 
*[[File:ShewanellaOneidensisGMBuilder_20151201_HMH.zip]]
 
*[[File:ShewanellaOneidensisGMBuilder_20151201_HMH.zip]]
  
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*#[[File:StatisticalAnalysis Shewanella RARL 20151207 HMH.xlsx]]
 
*#[[File:StatisticalAnalysis Shewanella RARL 20151207 HMH.xlsx]]
 
*#[[File:UpdatedCompiledRawData Shewanella RARL 20151201 ES HMH forsplitting.xlsx]]
 
*#[[File:UpdatedCompiledRawData Shewanella RARL 20151201 ES HMH forsplitting.xlsx]]
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*#* [[Media:UpdatedCompiledRawData_Shewanella_RARL_20151201_ES_HMH_forsplitting_KD.xlsx | UpdatedCompiledRawData_Shewanella_RARL_20151201_ES_HMH_forsplitting_KD.xlsx]]
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*#* I made corrections to Emily's file because there are 5408 genes, not 5408.  I think that both files have the same results not and you can move on to the next step.  ''— [[User:Kdahlquist|Kdahlquist]] ([[User talk:Kdahlquist|talk]]) 15:22, 9 December 2015 (PST)''
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*Ready for GenMAPP
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**[[File:UpdatedCompiledRawData WithGenMAPP 20151210 ES HMH.xlsx]]
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*.txt file for GenMAPP
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**[[File:CompiledRawData ForGenMAPP 20151208 HMH.txt]]
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* Ranked List from MAPPFinder: [[File:Ranked list from MAPPFinder.PNG]]
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===Sanity Check Table===
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*[[File:Sanity Check Chart 20151212 HMH.xlsx]]
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===MAPPFinder Documents===
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*gdb file - [[File:So-Std 20151201special.zip]]
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*[[File:ColorSetforExpressionData F60C60 20151210 HMH.gex]]
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*GenMAPP with all comparisons - [[File:FilesForComparison AllTrials WithGenMAPP 20151212 ES HMH.gex]]
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*Filtered GO terms for increased - [[File:MAPPFINDER 20151212-Criterion0-GO 20151212 HMH.xlsx]]
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**[[File:MAPPFINDER 20151212-Criterion0-GO 20151212 HMH.txt]]
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*Filtered GO terms for decreased - [[File:MAPPFINDER 20151212-Criterion1-GO 20151212 HMH.xlsx]]
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**[[File:MAPPFINDER 20151212-Criterion1-GO 20151212 HMH.txt]]
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*Screenshots showing significant results - [[File:CompiledScreenShots 20151212 HMH.docx]]
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*MAPP for Fatty Acid Degradation - [[File:Fatty Acid Degradation Soneidensis 20151213 HMH.mapp]]
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**Screenshot of results - [[File:Fatty Acid Degradation 20151214 HMH.PNG]]
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*MAPP for Ribosome - [[File:Ribosomal Soneidensis 20151213 HMH.mapp]]
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**Screenshot of results - [[File:Ribosomal Pathway 20151213 HMH.PNG]]
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*MAPP for Compiled Ribosome - [[File:Compiled Ribosome 20151216 HMH.mapp]]
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**Screenshot of results - [[File:Compiled Ribosome Image 20151216 HMH.PNG]]
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*MAPP for Compiled Fatty Acid Degradation  -[[File:Compiled Fatty Acid Degradation 20151216 HMH.mapp]]
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**Screenshot of results - [[File:Fatty Acid Degradation Compiled 20151216 HMH.PNG]]
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===KEGG Screenshots===
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*Fatty Acid Degradation [[File:Fatty Acid Pathway from KEGG 20151216 HMH.PNG]]
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*Ribosome [[File:Ribosome Pathway from KEGG 20151216 HMH.PNG]]
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===Tables for Paper===
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*Table showing variations between Yang et al. paper for 6 chosen genes and our results - [[File:Gene Comparison 20151216 HMH.xlsx]]
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*Tale showing variations between Yang et al. paper for genes involved in the ribosome pathway and our results - [[File:Ribosome Pathway Comparison 20151216 HMH.xlsx]]
  
 
[[Category:Heavy Metal HaterZ]]
 
[[Category:Heavy Metal HaterZ]]
 
[[Category:Group Projects]]
 
[[Category:Group Projects]]

Latest revision as of 05:24, 17 December 2015

All Files

  • All files will be listed here.
  • Appropriate way to title files:
    • FileName_YYYYMMDD_HMH

Gene Database


Initial Flow Chart

Journal Club Presentation Power Points

Data Processing Notes from Dr. Dahlquist

GenMapp Builder

Statistical Analysis Excel Sheets

Sanity Check Table

MAPPFinder Documents

KEGG Screenshots

  • Fatty Acid Degradation Fatty Acid Pathway from KEGG 20151216 HMH.PNG
  • Ribosome Ribosome Pathway from KEGG 20151216 HMH.PNG

Tables for Paper

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