Genomics, Proteomics, and Systems Biology
Reading Schedule: Spring 2018

Working Schedule

Dates Day Topics and Papers Read Before Class
Which Exam?
Jan 15 M
MLK Day
college closed
not yet
Jan 17 W Intro.; Freeman paper; read in class -->
exam 1
Jan 19 F genomes: one gene, one phenotype??
exam 1
Jan 22 M genomes: viruses alive, new domain??
exam 1
Jan 24 W genomes: n mutations per generation?
exam 1
Jan 26 F variations: human evolution
exam 1
first draft
M

Draft First Web Page

Choose an Area
Draft Mon Jan 29, class start time
Jan 29 M variations: human evolution complexity skin tone evolution
+ news story 1 + news story 2
exam 1
Jan 31 W variations: cancer heterogeneity
exam 1
Feb 2 F variations: variations across tissues rare variants
exam 1
Feb 5 M variations: random X inactivations X inactivations

exam 1
final version
M
First Web Page
Show What You Learned
Final Mon Feb 5, class start time
Feb 7
W
variations: copy number variations

CNV human neurons

exam 1
Feb 9 F variations: pharmacogenomics
exam 1
Feb 9 F 1st Exam TAKE HOME DUE Wed Feb 14, class start time
Feb 12 M no class
Dr. C. reviewing Biology Dept.
work on exam 1
Feb 14 W Ethics Discussion in Class

Turn In Exam

clinical trails OR incidental findings
OR bad luck cancer + pushback

DUE Wed Feb 14
class start time

Reading assigned during class

Feb 16 F variations: cancer mutations
exam 2
Feb 19 M metagenomics: microbiomes
exam 2
Feb 21 W metagenomics: obesity
exam 2
Feb 23 F metagenomics: artificial sweeteners
exam 2
Feb 26 M metagenomics: human habitats
exam 2
Feb 28
W
transcriptomics: cancer transcriptomes
exam 2
Mar 2 F transcriptomics: cancer transcriptomes
exam 2
Mar 5 M Spring Break ZZZZZZZ No Class
Mar 7 W Spring Break flip No Class
Mar 9 F Spring Break ZZZZZZZ No Class
Mar 12 M transcriptomics: RNAseq
exam 2
Mar 14 W transcriptomics: single cell RNAseq
exam 2
Mar 16 F epigenomics: parental input
exam 2
Mar 19 M epigenomics: ENCODE
exam 2
Mar 21 W epigenomics: epigenetic diseases
exam 2
Mar 23 F epigenomics: epigenetic breast cancer
exam 2
Mar 23 F 2nd Exam TAKE HOME DUE Wed March 28
class start time
Mar 26 M Future of the Field nanopore  OR  bioinformatics
OR GWAS to editing
final exam
Mar 28 W
Ethics Discussion in Class
Turn In Exam

epigenetic skeptic OR ENCODE skeptic
OR microbiome skeptic
DUE Wed March 28
class start time


Readings assigned during class

Mar 30

F

epigenomics: chromatin shapes cancers

cell-of-origin chromatin

final exam

Review Paper
choose one
paper A or paper B or paper C
Summarize Paper & Every Figure Web page Due Friday
April 27, 2 pm
Apr 2 M Easter Break rest and relax

Apr 4 W proteomics: proteins vs mRNA

worm/fly proteomes
ICAT Method

final exam
Apr 6 F proteomics: interactome interactome defines disease
final exam
Apr 9 M proteomics: cancer
final exam
Apr 11 W proteomics: single cells
final exam
Apr 13
F
metabolomics: biomarkers for diagnosis pancreatic cancer vs. pancreatitis
final exam
April 16 M
no class meeting
work on your paper summaries

Apr 18 W metabolomics: naked mole rat

anticancer properties
naked mole rat
hyaluronan

final exam
Apr 20 F metabolomics: drug-biota interactions
final exam
Apr 23 M systems biology: interacting gene networks I
higher order networks
final exam
Apr 25 W

systems biology: interacting gene networks II

global genetic interactions
final exam
Apr 27 F systems biology: genetics and networks

conservation of systems
final exam
Apr 27 F

submit review
paper A or paper B or paper C

Summarize Paper & Every Figure Web page Due Friday
April 27, 2 pm
Apr 30 M systems biology: mammalian circuits
trans-activating circuits
final exam
May 2 W systems biology: interactome disease-disease comparisons
final exam
May 4 F systems biology: lung adenocarcinoma TF and lncRNA networks
final exam
May 7 M

Last class & final exam emailed

Course Evaluations
Fellowships

Course Evaluations!

May 9 W No Classes campus-wide Celebration of Research
Give a Talk/ Hear Your Friends
May 9- 15 M - M Final Exam
Due May 15, 9 am
 submit electronic copy by email the rest of your life!

Genomics Overview

Genomics Syllabus

Biology Home Page


Copyright 2018 Department of Biology, Davidson College, Davidson, NC 28035
Send comments, questions, and suggestions to:
macampbell@davidson.edu