Oregon Trail Survivors - Revision history

Kzebrows: delete file link

2015-12-18T09:10:20Z

delete file link

Kzebrows: /* Goals */ add link to final power point

2015-12-15T07:33:01Z

‎Goals: add link to final power point

Troque: /* Week 15 */ Added Trixie's entry

2015-12-15T06:13:57Z

‎Week 15: Added Trixie's entry

Eyanosch: /* Week 15 */ Week 15 contributions

2015-12-15T06:01:59Z

‎Week 15: Week 15 contributions

Jwoodlee: /* Week 15 */ edited formatting

2015-12-15T03:41:57Z

‎Week 15: edited formatting

Jwoodlee: /* Week 15 */ added summary of changes

2015-12-15T03:41:31Z

‎Week 15: added summary of changes

Kzebrows: /* Week 15 */ status report

2015-12-15T03:24:52Z

‎Week 15: status report

Kzebrows: /* Week 15 */ status report

2015-12-15T02:33:16Z

‎Week 15: status report

Kzebrows: /* Group Meeting Times */ edit group meeting times

2015-12-08T22:36:19Z

‎Group Meeting Times: edit group meeting times

Kzebrows: /* Week 15 */ Week 15 goals

2015-12-08T22:34:15Z

‎Week 15: Week 15 goals

← Older revision		Revision as of 09:10, 18 December 2015
Line 12:		Line 12:

	{{Template:Oregon Trail Survivors}}		{{Template:Oregon Trail Survivors}}
−
−	~~=== Presentation (QA/Coder) ===~~
−	* PDF can be seen [[Media: Genome Paper Presentation BioDB.pdf \| here]]

	===Group Meeting Times===		===Group Meeting Times===

@@ Line 111: / Line 111: @@
 #GenMAPP Users: Finish Milestone 3. Run tests with GenMAPP. Do a journal club outline of the paper to use in the Discussion section of group report and presentation. Create a .mapp file showing one changed pathway from the data.
 #All team members will be working together to put together deliverables including the final report and presentation for next Tuesday.
 Click on username links for more information regarding each team member's contributions for Week 14.

@@ Line 114: / Line 114: @@
 Click on username links for more information regarding each team member's contributions for Week 14.
 * [[Jwoodlee Week 15 | Jake]]: Pulled Dondi's changes, and then created a new clean distribution.  I then uploaded that distribution to our OTS Files page.  Edited properties file for TallyEngine.
-* [[Troque Week 15 | Trixie]]:
+* [[Troque Week 15 | Trixie]]: Had to re-import to PostgreSQL due to having imported twice -- this resulted in the number of counts being twice as much as what was in the XML file. Also worked with Dr. Dionisio in order to find ~92 new IDs from the XML file that were not caught before and collaborated with Jake in order to make 2 more builds that should, ideally, produce the intended 92 genes.
 * [[Eyanosch Week 15 | Erich]]: Used Kristin's color sets criterion GO files to fill out my gene expression MAPP. Made MAPPS for pathways that were significantly affected such as Metabolic procceses (glycolysis, TCA cycle), Flagellar Assembly, and Ribosome. Incorporated the data into slides for the power point and analyzed the data obtained with that produced from the microarray paper.
 * [[Kzebrows Week 15 | Kristin]]: I created color sets with Increased/Decreased criteria for all of the 12 treatment/time point combos. Then, based on the criterion.go files, I created tables by filtering the results comparing the most commonly induced or repressed genes for the 1 x MIC at 60 minutes and 0.5 x MIC at 10 minutes between RX and RP. Strikingly, we found that between RX and RP the effects were very similar. I then compared them with the .mapp files that Erich created and put my portion of the project (compiled sanity check, color set, comparison tables) in the power point.

@@ Line 115: / Line 115: @@
 * [[Jwoodlee Week 15 | Jake]]: Pulled Dondi's changes, and then created a new clean distribution.  I then uploaded that distribution to our OTS Files page.  Edited properties file for TallyEngine.
 * [[Troque Week 15 | Trixie]]:
-* [[Eyanosch Week 15 | Erich]]:
+* [[Eyanosch Week 15 | Erich]]: Used Kristin's color sets criterion GO files to fill out my gene expression MAPP. Made MAPPS for pathways that were significantly affected such as Metabolic procceses (glycolysis, TCA cycle), Flagellar Assembly, and Ribosome. Incorporated the data into slides for the power point and analyzed the data obtained with that produced from the microarray paper.
 * [[Kzebrows Week 15 | Kristin]]: I created color sets with Increased/Decreased criteria for all of the 12 treatment/time point combos. Then, based on the criterion.go files, I created tables by filtering the results comparing the most commonly induced or repressed genes for the 1 x MIC at 60 minutes and 0.5 x MIC at 10 minutes between RX and RP. Strikingly, we found that between RX and RP the effects were very similar. I then compared them with the .mapp files that Erich created and put my portion of the project (compiled sanity check, color set, comparison tables) in the power point.

@@ Line 113: / Line 113: @@
 Click on username links for more information regarding each team member's contributions for Week 14.
-* [[Jwoodlee Week 15 | Jake]]:Pulled Dondi's changes, and then created a new clean distribution.  I then uploaded that distribution to our OTS Files page.  Edited properties file for TallyEngine.
+* [[Jwoodlee Week 15 | Jake]]: Pulled Dondi's changes, and then created a new clean distribution.  I then uploaded that distribution to our OTS Files page.  Edited properties file for TallyEngine.
 * [[Troque Week 15 | Trixie]]:
 * [[Eyanosch Week 15 | Erich]]:

@@ Line 17: / Line 17: @@
 ===Group Meeting Times===
-Thursday, November 5th at 8:00 pm
+*Thursday, November 5th at 8:00 pm
 == Goals ==

@@ Line 106: / Line 106: @@
 ===Week 15===
+#Coder: Work with QA to fix bugs.
+#QA: Work with coder to fix bugs in the .gdb.
+#GenMAPP Users: Finish Milestone 3. Run tests with GenMAPP. Do a journal club outline of the paper to use in the Discussion section of group report and presentation. Create a .mapp file showing one changed pathway from the data.
 Click on username links for more information regarding each team member's contributions for Week 14.