|
|
| | * GenMAPP Gene Database for assigned species (''.gdb'') | | * GenMAPP Gene Database for assigned species (''.gdb'') |
| | * ReadMe file to accompany the Gene Database (''.pdf'') | | * ReadMe file to accompany the Gene Database (''.pdf'') |
| − | ** Sample ReadMe in Word format: [[Media:ReadMe_Vc-Std_External_20101022.zip | ReadMe_Vc-Std_External_20101022.zip]] | + | ** Sample ReadMe in Word format: [[Media:ReadMe_Vc-Std_External_20131122.zip | ReadMe_Vc-Std_External_20131122.zip]] |
| | ** Include Gene Database Schema diagram in ReadMe | | ** Include Gene Database Schema diagram in ReadMe |
| | *** Sample schema in Adobe Illustrator format: [[Media:Vibrio_schema_20101022.zip | Vibrio_schema_20101022.zip]] | | *** Sample schema in Adobe Illustrator format: [[Media:Vibrio_schema_20101022.zip | Vibrio_schema_20101022.zip]] |
| | + | * Gene Database Testing Report for final submitted Gene Database (print from wiki to ''.pdf'' file) |
| | * Processed and analyzed DNA microarray dataset (''.xls'') | | * Processed and analyzed DNA microarray dataset (''.xls'') |
| | * GenMAPP Expression Dataset file (''.gex'') | | * GenMAPP Expression Dataset file (''.gex'') |
|
|
| | * Sample MAPP file of a relevant biological pathway for your species (''.mapp'') | | * Sample MAPP file of a relevant biological pathway for your species (''.mapp'') |
| | * [[Gene Database Project Report Guidelines#Group Report | Group Report]] describing the creation of the Gene Database and the biological analysis of the data (''.doc'' or ''.pdf'') | | * [[Gene Database Project Report Guidelines#Group Report | Group Report]] describing the creation of the Gene Database and the biological analysis of the data (''.doc'' or ''.pdf'') |
| − | * PowerPoint presentation (''.ppt'', given in class on Tuesday, December 7) | + | * PowerPoint presentation (''.ppt'', given on Thursday, December 12) |
| − | <!-- * Gene Database Testing Report -->
| + | |
| | | | |
| | === Individual === | | === Individual === |
| − | * [[Gene Database Project Report Guidelines#Individual Assessment and Reflection | Assessment and reflection]] on process | + | * [[Gene Database Project Report Guidelines#Individual Assessment and Reflection | Assessment and reflection]] on process (either wiki or email, depending on your preference; see note in the linked section) |
| | ** Statement of work | | ** Statement of work |
| | ** Assessment of the work done | | ** Assessment of the work done |
| | ** What was learned | | ** What was learned |
| | + | ** Team evaluation via the [https://www.catme.org CATME] survey |
| | + | **: ''You will, or should have already, received an email message from the CATME system with login instructions on your '''LMU email account''' (not necessarily the preferred email address that you listed in the wiki).'' |
| | | | |
| | == Team Journal Entries == | | == Team Journal Entries == |
| | | | |
| | * Each team will write a combined journal entry for each week with contributions from all members. | | * Each team will write a combined journal entry for each week with contributions from all members. |
| − | * [[Week 11]] (midnight 11/8) | + | * [[Week 10]] Creation of page (midnight 11/1) |
| | + | * [[Week 11]] (midnight 11/7) |
| | * [[Week 12]] (midnight 11/15) | | * [[Week 12]] (midnight 11/15) |
| | * [[Week 13]] (midnight 11/22) | | * [[Week 13]] (midnight 11/22) |
|
|
| | | | |
| | The project groups are: | | The project groups are: |
| − | * ''To be determined.'' | + | # Team 1 |
| | + | #* Coder: Katrina |
| | + | #* Quality Assurance: Hilda |
| | + | #* GenMAPP User: Dillon |
| | + | # Team 2 |
| | + | #* Coder: Tauras |
| | + | #* Quality Assurance: Alina |
| | + | #* GenMAPP User: Kevin Meilek |
| | + | # Team 3 |
| | + | #* Coder: Gabriel |
| | + | #* Quality Assurance: Lena |
| | + | #* GenMAPP Users: Kevin McGee and Viktoria |
| | + | # Team 4 |
| | + | #* Coder: Mitchell |
| | + | #* Quality Assurance: Stephen |
| | + | #* GenMAPP Users: Lauren and Miles |
| | + | |
| | | | |
| | === Roles (Guilds) === | | === Roles (Guilds) === |
| | | | |
| − | As the project moves forward, we will use class time for team meetings. In addition, we will also have guild meetings where students sharing the same role can work together on common issues. Each student has been assigned a primary role in the project by the instructors. The student who was elected the team leader also has a secondary role as the project manager. | + | As the project moves forward, we will use class time for team meetings. In addition, we will also have guild meetings where students sharing the same role can work together on common issues. Each student has been assigned a primary role in the project by the instructors. <!--The student who was elected the team leader also has a secondary role as the project manager.--> |
| | | | |
| | ==== [[Project Manager]] (PM) ==== | | ==== [[Project Manager]] (PM) ==== |
|
|
| | == Project Milestones == | | == Project Milestones == |
| | | | |
| − | The project milestones have been moved to the individual guild pages.
| + | Specific project milestones are found on the individual guild pages. |
| | | | |
| | === Overall Flow === | | === Overall Flow === |
|
|
| | [[Image:ProjectWorkflow.jpg|450px|thumb|right|Overall Flow]] | | [[Image:ProjectWorkflow.jpg|450px|thumb|right|Overall Flow]] |
| | | | |
| − | # Following the steps shown in the [[Running GenMAPP Builder]] instructions, download the UniProt XML proteome set and GOA (GO association) files from [http://www.ebi.ac.uk/integr8/EBI-Integr8-HomePage.do Integr8] for your species. | + | # Following the steps shown in the [[Running GenMAPP Builder]] instructions, download the UniProt XML proteome set and GOA (GO association) files for your species. |
| | #* Make sure that you are choosing the correct strain/subspecies as the microarray data you have. | | #* Make sure that you are choosing the correct strain/subspecies as the microarray data you have. |
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