Difference between revisions of "Aporras1 Week 15"

Revision as of 23:40, 5 December 2017

Assignment page: Week 15

Network was determined to be too big.
- Began process of deleting the least significant
Re-downloaded Media:AP YEASTRACT Transcription Factors.xlsx and found the transcription factors which I used in Aporras1_Week_14:
- - GLN3
  - HAP4
  - Ace2p
  - Sfp1p
  - Bas1p
  - Msn2p
  - Yap1p
  - Ash1p
  - Gcn4p
  - Msn4p
  - Abf1p
  - Cst6p
  - Sok2p
  - Rpn4p
  - Hsf1p
  - Zap1p
  - Cin5p
  - Aft1p
  - Spt23p
  - Pdr1p
  - Met4p
  - Arr1p
Moved "network" workbook to a new file:
Began by deleting ARR1 in worksheet "network ARR1 deletion"
- Deleted row 5 and column E containing ARR1 data.
Moved whole spreadsheet to a new worksheet "network"
Selected the menu item File > Open and selected "FILENAME" file that has the "network" worksheet.

Excel spreadsheet with ANOVA results/stem formatting (.xlsx)
PowerPoint of screenshots of stem results (.pptx)
Gene List and GO List files from each significant profile (.txt compressed together in a .zip file)
YEASTRACT "rank by TF" results (.xlsx)
GRNmap input workbook (with network adjacency matrix, .xlsx)
GRNmap output workbook (.xlsx)
Electronic notebook corresponding to these the microarray results files (Week 8, Week 10, and Weeks 11-15) support reproducible research so that all manipulations of the data and files are documented so that someone else could begin with your starting file, follow the protocol, and obtain your results.
- Note: make a summary and provide links to individual pages with electronic notebooks.

Worked alongside Quinn Lanners to begin gathering deliverables.
Copied the formatting and text from GRNsight_Gene_Page_Project_Deliverables checklist in my checklist category.

LMU BioDB 2017. (2017). Week 15. Retrieved December 05, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_15
LMU BioDB 2017. (2017). GRNsight Gene Page Project Deliverables. Retrieved December 05, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/GRNsight_Gene_Page_Project_Deliverables

@@ Line 6: / Line 6: @@
 ==Electronic Notebook==
+# Network was determined to be too big.
+#* Began process of deleting the least significant
+# Re-downloaded [[Media:AP YEASTRACT Transcription Factors.xlsx]] and found the transcription factors which I used in [[Aporras1_Week_14]]:
+#**GLN3
+#**HAP4
+#**Ace2p
+#**Sfp1p
+#**Bas1p
+#**Msn2p
+#**Yap1p
+#**Ash1p
+#**Gcn4p
+#**Msn4p
+#**Abf1p
+#**Cst6p
+#**Sok2p
+#**Rpn4p
+#**Hsf1p
+#**Zap1p
+#**Cin5p
+#**Aft1p
+#**Spt23p
+#**Pdr1p
+#**Met4p
+#**Arr1p
+# Moved "network" workbook to a new file:
+# Began by deleting ARR1 in worksheet "network ARR1 deletion"
+#* Deleted row 5 and column E containing ARR1 data.
+# Moved whole spreadsheet to a new worksheet "network"
+# Selected the menu item File > Open and selected "FILENAME" file that has the "network" worksheet.
+# YEASTRACT Adjacency Matrix with Network for GRNsight: [[Media:AP Adjacency Matrix profile22 Network dZAP1.xlsx]]
 ===Deliverables Checklist===
 # Excel spreadsheet with ANOVA results/stem formatting (''.xlsx'')