Final Project Deliverables - Revision history

Kdahlquist: /* PowerPoint Presentation */ change time for powerpoint uplod

2019-12-05T23:25:04Z

‎PowerPoint Presentation: change time for powerpoint uplod

2019-11-20T18:17:59Z

‎Deliverables Checklist: add link to instructions for schema diagram

2019-11-20T18:12:47Z

‎QA: flesh out QA a little more

2019-11-20T18:11:14Z

‎Deliverables Checklist: add sample-data relationship table

2019-11-20T18:08:13Z

‎Introduction: add use by other scientists

2019-11-20T18:07:39Z

‎Data Analyst: additional details about how to compare with the journal article

2019-11-20T18:04:02Z

‎Introduction: modify approach

2019-11-19T23:16:27Z

‎Assessment of Project: remove reference to gene page

2019-11-19T23:15:56Z

‎PowerPoint Presentation: clarified whose jc presentation

2019-11-19T23:15:05Z

‎Deliverables Checklist: remove typo

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 ** Acknowledgments
 ** References
-* '''''Your PowerPoint slides must be uploaded to the wiki and linked to from your individual journal page and your team page by 12:01am, Tuesday, December 10.'''''
+* '''''Your PowerPoint slides must be uploaded to the wiki and linked to from your individual journal page and your team page by 12:00pm (noon), Tuesday, December 10.'''''
 ** You can update your slides before your presentation, but we will be grading the ones you upload by the deadline.
 * Your presentation (both the slides and the oral presentation) will be evaluated by the instructors using the [[Presentation Rubric]].

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 # GRNmap output workbook (''.xlsx'') and output plots (''.jpg'') zipped together
 # MS Access database, unified by the three teams with expression tables and metadata table(s) created (''.accdb'')
-# ReadMe for the database that describes the design of the database, references the sources of the data, and has a database schema diagram (''.doc'', ''.docx'', ''.pdf'')
+# ReadMe for the database that describes the design of the database, references the sources of the data, and has a [https://www.quackit.com/microsoft_access/microsoft_access_2016/howto/how_to_create_a_database_diagram_in_access_2016.cfm database schema diagram] (''.doc'', ''.docx'', ''.pdf'')
 # Query design for populating a GRNmap input workbook from the database (screenshot of MS Access, or SQL code, ''.txt'')
 # Electronic notebook corresponding to these the microarray results files ([[Week 12/13]] and [[Week 15]]) to 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.

← Older revision		Revision as of 18:12, 20 November 2019
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	* Describe the QA process for the database, noting any issues that were encountered, and stating whether data are complete or not.		* Describe the QA process for the database, noting any issues that were encountered, and stating whether data are complete or not.
		+	** Refer to the sample-data relationship table to discuss how microarray data format was regularized
		+	** Discuss whether all yeast gene IDs were imported into the database and any formatting issues

	=== Conclusions ===		=== Conclusions ===

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 # Individual statements of work, assessments, reflections (wiki page, ''.doc'', ''.docx'', ''.pdf'', or e-mailed to Dr. Dahlquist)
 # Group PowerPoint presentation (given on Tuesday, December 10, ''.ppt'', ''.pptx'' or ''.pdf'' file)
 # Excel spreadsheet with ANOVA results/stem formatting (''.xlsx'')
 # PowerPoint of ANOVA table, screenshots of stem results (''.pptx''), screenshot of black and white GRNsight input network and colored GRNsight output networks

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 ** In this case you want to discover new information about the microarray data using GRNmap and GRNsight.
 * State the approach
-** Creating an MS Access database to facilitate making a GRNmap input workbook.
+** Creating an MS Access database to facilitate making a GRNmap input workbook that can be used by your group and other scientists in the future.
 === Combined Methods/Results/Discussion section ===

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 * Table of ANOVA results from the [[Week 8]], discussing the interpretation of the p values.
 * From the STEM analyis, include as figures the overall results (the screenshot showing all of the clusters) and then focus on the ones you interpreted for the [[Week 10]] journal assignment.
 ** Include a table showing the GO results for that cluster (just the narrowed down list of terms that you have interpreted).
 ** Discuss what the p values for the cluster and for the GO term list mean.
 ** Discuss the biological interpretation of your GO terms.
 * Include a table that lists the transcription factors in your final network and their enrichment p value from YEASTRACT.
 ** Describe how and why you and your partner chose these transcription factors for your network.
 ** Include a figure (screenshot) of the unweighted networks visualized with GRNsight.
 * GRNmap results
 ** Show the GRNsight visualization (screenshot) of the weighted networks, making sure that the genes are placed in the same relative location as each other an as the unweighted network figure.
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 ** Organize and show the individual expression plots
 ** Interpret the results of the model
 ==== Coder/Designers ====

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 * What worked and what didn't work?
 * What would you do differently if you could do it all over again?
-* Evaluate your team’s portion of the GRNsight Gene Page Project and Group Report in the following areas:
+* Evaluate your team’s portion of the Final Project and Group Report in the following areas:
 *# Content: What is the quality of the work?
 *# Organization: Comment on the organization of the project and of your group's wiki pages.

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 ** Outline slide that is a summary of take-home messages of your talk (should mirror your conclusion slide)
 ** The body of your talk (organized in a logical flow, not necessarily in the order given below).
-*** Introduce the importance/significance of the problem and give background on the experiment in your journal article.  You can draw from the DA/QA's journal club presentation.  This should follow the logic of the Introduction section of your group paper.
+*** Introduce the importance/significance of the problem and give background on the experiment in your journal article.  You can draw from the your journal club presentation.  This should follow the logic of the Introduction section of your group paper.
 *** Show a combined flow chart of the tasks/milestones completed by your group (see Materials and Methods of group paper).
 *** Show the table of ANOVA results.