Working Syllabus
Class meets T/R 9:40 - 10:55 pm in Wall B05
Office Hours: M 11-noon; T 3 - 4 pm; or most anytime by appointment
The college welcomes requests for accommodations related to disability and will grant those that are determined to be reasonable and maintain the integrity of a program or curriculum. To make such a request or to begin a conversation about a possible request, please contact the Office of Academic Access and Disability Resources, which is located in the Center for Teaching and Learning in the E.H. Little Library: Beth Bleil, Director, 704-894-2129; or Alysen Beaty, Assistant Director, 704-894-2939. It is best to submit accommodation requests within the drop/add period; however, requests can be made at any time in the semester. Please keep in mind that accommodations are not retroactive.
Learning Goals
Learning Objectives
Bio343 is a lab-only course that is primarily data analysis by computer. I am very excited about this course for two main reasons.
The mouse strain we are
working with is called GarsP278KY
and it was generated in a ENU
mutagenesis project. You can read more at the MGI
entry for this allele. The RNAseq was set up as 3 males and 3
females, with both wildtype and mutant animals, so 12 animals in
all. After cervical dislocation, the spinal cords were removed
and flash frozen prior to RNA extraction and subsequent library
construction. Emily S. is the graduate student working on this animal
and CMT2D. More details here.
Because this is a research course, all of
us have to be flexible in the material we learn. It is impossible
to know where this course will take us exactly. I have a rough plan, but
nothing firm yet until we see how these projects unfold. If you need a
highly structured course, this will not be a good fit for you. Each
student will need to learn how to edit
a wiki site used for this research project.
Required Readings
1) Online web sites
2) Research publications on genomes (PDFs gathered during semester)
Tentative Weekly Schedule
Week of Semester
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Subject Matter and Assignments
Due
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Week 1: Jan 16 & 18 |
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Week 2: |
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Week 3: |
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Week 4: Feb 6 &8 |
Start working with RNAseq data
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What questions to ask? How to answer them? |
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Week 5: Feb 13 & 15 |
Continue working on RNAseq data
(Dr. C. out of town, reviewing a Dept.) |
Continue working on RNAseq data | |
Week 6: Feb 20 & 22 |
Continue working on RNAseq data +
quick Zotero lesson |
Continue working on RNAseq data, start methods & results | |
Week 7: Feb 27 & Mar 1 |
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null Week |
Spring Break |
Spring Break |
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Week 8: |
Start new
project: wet lab exploration of worms read NR5A1 paper |
finish NR5A1 paper |
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Week 9: Mar 20 & 22 |
DESeq2 & GOrilla |
Continue working on RNAseq data | |
Week 10: Mar 27 & 29 |
learn some worm resources |
solo status report of paired research project graded by Dr. C. | |
Week 11: Apr 3 & 5 |
Easter Break |
continue working on RNAseq data |
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Week 12: Apr 10 & 12 |
continue working on RNAseq
data |
assess Status and Agree on
Endgame |
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Week 13: |
work on group
oral presentation |
finalize
group oral presentation |
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Week 14: Apr 24 & 26 |
Group oral
Presentation with peer review
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Group oral
Presentation with peer review
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Week 15: May 1, 3 & 8 |
submit hard copy draft for peer-review during
class |
fellowships presentation |
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No Class Optional Tuesday Final paper due (as Word file) emailed by noon on Reading Day |
Grading
Grades will be based on:
The exact nature of the presentations and
papers cannot be determined at this point. You will use the course
wiki page as an online lab notebook to track your daily progress.
Keep in mind that your work will be the foundation that investigators
will use for subsequent research so it is important to keep good notes
online.
Grading Scale:
A = 100 - 94 | A- = 93 - 90 | |
B+ = 89 - 87 | B = 86 - 83 | B- = 82 - 80 |
C+ = 79 - 77 | C = 76 - 73 | C - = 72 - 70 |
D+ = 69 - 66 | D = 65 - 60 | |
F = < 59 |
Genomics
& Bioinformatics Majors
© Copyright 2018 Department of Biology, Davidson
College, Davidson, NC 28035
Send comments, questions, and suggestions to: macampbell@davidson.edu