GRNsight Gene Page Project Deliverables - Revision history

Kdahlquist: /* Group Report */ finished modifications to group report

2017-12-08T21:55:46Z

‎Group Report: finished modifications to group report

Kdahlquist: /* Cover Page */ changed cover to title

2017-12-08T21:52:59Z

‎Cover Page: changed cover to title

Kdahlquist: /* Group Report */ continue to modify report

2017-12-08T21:52:16Z

‎Group Report: continue to modify report

Kdahlquist: /* Abstract */ fix formatting

2017-12-08T21:43:21Z

‎Abstract: fix formatting

Kdahlquist: /* Group Report */ started to modify

2017-12-08T21:42:44Z

‎Group Report: started to modify

Qlanners: fixed spacing

2017-12-07T23:59:12Z

fixed spacing

Qlanners: added signature to uploaded outline image

2017-12-07T23:58:44Z

added signature to uploaded outline image

Qlanners: added image of updated outline for group report

2017-12-07T23:58:05Z

added image of updated outline for group report

Kdahlquist: /* Deliverables Checklist */ put in grading

2017-11-30T22:00:01Z

‎Deliverables Checklist: put in grading

Kdahlquist: /* PowerPoint Presentation */ details on PowerPoint.

2017-11-21T00:26:24Z

‎PowerPoint Presentation: details on PowerPoint.

@@ Line 109: / Line 109: @@
 * Describe the data selected from each database for the gene page and the rationale for its inclusion.
 * Describe any other tasks undertaken by the QA.
 === Conclusions ===
-* Write a concluding paragraph that summarizes the overall project and your findings.
+* Write a '''1-2''' page conclusion that summarizes the overall project and your findings.
-* What future directions would you take if you were to continue this project?
+** Overall, what have you learned about the regulation of cold shock in yeast?
 === Acknowledgments ===

@@ Line 46: / Line 46: @@
 * Use left justification (“jagged” on the right side)
-=== Cover Page ===
+=== Title Page ===
-Include the following information in a standalone cover page:
+Include the following information in a standalone title page:
 * A descriptive title for your project
 ** The function of the title is to identify the main result or take-home message of the paper. It should be as specific as possible. It can be a phrase or a sentence. What is the main result of your paper that you want to convey with the title?

@@ Line 80: / Line 80: @@
 ** Give an overview of your team's contribution to GRNsight and why it is needed.
-=== Materials & Methods ===
+=== Combined Materials & Methods/Results/Discussion section ===
-This section will summarize the entire workflow for the project.  This needs to be a '''''narrative description''''' of what your team actually did, but not a step-by-step protocol.  We are following the standards of reproducible research such that someone else with the appropriate expertise could reproduce what you did given the information in your Materials and Methods section.  You can consider your audience to be the fellow members of your class.
+This section will summarize the entire workflow and findings for the project with contributions from all team members, with subsections for the Data Analyst, QA/PM, and Coders.  This needs to be a '''''narrative description''''' of what your team actually did, illustrated by figures and tables, as appropriate.
+* Optional: create a combined flow chart of the tasks/milestones of each of the team members (coders, QA, data analyst) and then describe the flow chart in the text.
 * Number each of the figures sequentially and number each of the tables sequentially in order from first mention in the text.  You can either embed your figures and tables in the appropriate place in the text or put them all at the end.  Do not mix both styles, however.
 * Write a descriptive legend for each figure and table that briefly states what the figure/table is and gives a brief key to any labels and abbreviations.
-==== Results of Microarray Data Analysis ====
+==== Data Analyst ====
 * Table of ANOVA results from the [[Week 8]], discussing the interpretation of the p values.
@@ Line 105: / Line 100: @@
 * Interpret the results of the model as visualized in GRNsight.
-==== Coding Results ====
+==== Coders ====
 * Give a narrative description of the new features created by the Coders.
 ** Provide code snippets and/or screenshots to illustrate as necessary.
 === Discussion ===

@@ Line 57: / Line 57: @@
 === Abstract ===
-<s>Provide an abstract of no more than 500 words.</>  ''An abstract is no longer required.''
+<s>Provide an abstract of no more than 500 words.</s>  ''An abstract is no longer required.''
 === Introduction ===

@@ Line 30: / Line 30: @@
 [[File:Biological databases paper outline.jpg | 500px]]
-These guidelines are based on the [https://peerj.com/about/author-instructions/ Instructions for Authors] issued by the [https://peerj.com/computer-science/ PeerJ Computer Science] journal. We have made this choice so that, if a group report is considered to be of sufficient quality, we can pursue publication of this report in ''PeerJ Computer Science'' as smoothly as possible. If there are formatting or detail questions that are not covered here, visit the [https://peerj.com/about/author-instructions/ Instructions for Authors] and follow their guidance.
+<!--These guidelines are based on the [https://peerj.com/about/author-instructions/ Instructions for Authors] issued by the [https://peerj.com/computer-science/ PeerJ Computer Science] journal. We have made this choice so that, if a group report is considered to be of sufficient quality, we can pursue publication of this report in ''PeerJ Computer Science'' as smoothly as possible. If there are formatting or detail questions that are not covered here, visit the [https://peerj.com/about/author-instructions/ Instructions for Authors] and follow their guidance.-->
 * The report should be written with contributions from all group members.
@@ Line 55: / Line 57: @@
 === Abstract ===
-Provide an abstract of no more than 500 words.
+<s>Provide an abstract of no more than 500 words.</>  ''An abstract is no longer required.''
 === Introduction ===
-The introduction gives the background information necessary to understand your report and should be 3-5 pages long (double-spaced).  The introduction should be in the form of a logical argument that “funnels” from broad to narrow:
+The introduction gives the background information necessary to understand your report and should be <s>3-5</s> '''1-2''' pages long (double-spaced).  The introduction should be in the form of a logical argument that “funnels” from broad to narrow:
 <gallery mode="nolines" widths=322px heights=256px>

@@ Line 27: / Line 27: @@
   Image of updated outline for Group Report
-[[User:Qlanners|Qlanners]] ([[User talk:Qlanners|talk]]) 15:58, 7 December 2017 (PST)
+[[User:Qlanners|Qlanners]] ([[User talk:Qlanners|talk]]) 15:58, 7 December 2017 (PST) <br>
 [[File:Biological databases paper outline.jpg | 500px]]

← Older revision		Revision as of 23:58, 7 December 2017
Line 27:		Line 27:

	Image of updated outline for Group Report		Image of updated outline for Group Report
		+	[[User:Qlanners\|Qlanners]] ([[User talk:Qlanners\|talk]]) 15:58, 7 December 2017 (PST)
	[[File:Biological databases paper outline.jpg \| 500px]]		[[File:Biological databases paper outline.jpg \| 500px]]

← Older revision		Revision as of 23:58, 7 December 2017
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	== Group Report ==		== Group Report ==
		+
		+	Image of updated outline for Group Report
		+	[[File:Biological databases paper outline.jpg \| 500px]]

	These guidelines are based on the [https://peerj.com/about/author-instructions/ Instructions for Authors] issued by the [https://peerj.com/computer-science/ PeerJ Computer Science] journal. We have made this choice so that, if a group report is considered to be of sufficient quality, we can pursue publication of this report in ''PeerJ Computer Science'' as smoothly as possible. If there are formatting or detail questions that are not covered here, visit the [https://peerj.com/about/author-instructions/ Instructions for Authors] and follow their guidance.		These guidelines are based on the [https://peerj.com/about/author-instructions/ Instructions for Authors] issued by the [https://peerj.com/computer-science/ PeerJ Computer Science] journal. We have made this choice so that, if a group report is considered to be of sufficient quality, we can pursue publication of this report in ''PeerJ Computer Science'' as smoothly as possible. If there are formatting or detail questions that are not covered here, visit the [https://peerj.com/about/author-instructions/ Instructions for Authors] and follow their guidance.

@@ Line 17: / Line 17: @@
 # 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.
 == Group Report ==

@@ Line 127: / Line 127: @@
 ** Title slide that gives the main take-home message as the title of your presentation, the authors, date, and venue (course number and title).
 ** Outline slide that is a summary of take-home messages of your talk (should mirror your conclusion slide)
-** The body of your talk (more details below)
+** The body of your talk (organized in a logical flow, not necessarily in the order given below).
 ** Conclusion slide that mirrors your outline
 ** Future directions