5/21/13
Course:
Instructor:
Biol 401
Dr. Alison Crowe
426A Hitchcock Hall
616.6945
acrowe@u.washington.edu
Office Hours:
Wed 4:30-5:30 PM
HCK 426A
or by arrangement
Teaching Assistant: Qing Feng
qingf@u.washington.edu
Office Hours: TBA
NOTE: CHANGE OF ROOM FOR AB TO LOW 216
Required Text:
Lodish et al., 2013, 7th edition, Molecular Cell Biology
Required Course Manual: Professional Copy’n Print
4200 Univ. Way NE
Course website:
http://mesh.biology.washington.edu/biol401-spr13/index.html
You will need the following info to access
the readings folder on the course website:
Login: biol401 Password: cell
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Schedule in course manual: Topics, Assignments, Due dates
Important dates:
Midterm: April 30 10:30-11:20 AM MGH 231
Final: June 10:30AM-12:20 PM MGH 231
Discussion sections are mandatory
Readings: To be completed each week BEFORE lecture
and discussion sections
This week: How we study cells & protein trafficking
Overview of cell biology approaches: Chp 1.2 p. 10-15 (Fig. 1-13, 1-14)
Gene and protein tagging: Chp 5 pp. 203-205 (Fig. 5-34)
Organelles of the eukaryotic cell: Chp. 9 pp. 424-427 (Fig. 9-32)
Overview protein trafficking: Chp. 13 p. 577-579 (Fig. 13-1)
POINTS AVAILABLE IN CLASS
Individual Points
Diagnostic Test
W.A. #1 - nuclear transport I
W.A. #2 – nuclear transport II
W.A. #3 – critical analysis
W.A. #4 – figure analysis
MCQ answers
Practice Midterm
Midterm Exam
Final Exam
Subtotal
3
15*
10
10
5
5
5
60
90 pts
203 pts (70%)
* Due in Lecture Next Week
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Group Points
Reading Quiz #1 (group)
Reading Quiz #2 (group)
Nuclear Transport Experiment
Group presentation of figures
W.A. # 5 – Critical Analysis
Subtotal
5
5
5
10
20 pts
45 pts (16%)
Group Participation Score
Group Assessment #1
Group Assessment #2
Subtotal
20
20 pts
40 pts (14%)
Total
288 pts
*Access your scores on course web page: “scores” link on
left-hand menu
Learning Goals for Course:
•  Evaluate the relative merit of using a particular
molecular technique to address a specific research question
•  Interpret cellular and molecular data (e.g. gels, graphs)
•  Predict outcomes of future experiments based on existing
data
•  Develop new hypotheses and design experiments
to test those hypotheses
•  Draw a model for a molecular process
based on existing data
•  Recognize assumptions inherent in a given molecular model
•  Evaluate the merits of a scientific study
• Communicate scientific ideas and/or interpretations
articulately, both in writing and orally.
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How People Learn
Rudderless
learners
Imagination
synthesis
Adaptive
experts
evaluation
analysis
application
knowledge comprehension
Expertise
Routine
experts
John Bransford
Course Outline
• Protein Trafficking
• Nuclear transport
• Nuclear environment
• Nuclear pore structure
• Spatial and dynamic organization of nucleus
• Eukaryotic transcription regulation
•  Epigenetic regulation
•  Cell memory
•  Cell specialization
•  Embryonic Stem Cells
•  Epigenetic modifications during differentiation
•  Maintenance of pluripotency
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What are the advantages and challenges of eukaryotic
and prokaryotic cells?
Fig. 1-11, 1-12. Lodish et al. 2013
Review organelles in readings:
know primary function of cell organelles
To understand how genes are regulated, need to understand
the nuclear environment: structure, spatial organization
Know these Terms:
Nuclear envelope (NE)
Nuclear pore complex (NPC)
Nuclear lamina
Nucleolus
Chromatin (heterochromatin and euchromatin)
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5/21/13
Overview of Protein Trafficking
Signal sequences
on proteins target
them to locations
within the cell
Protein Sorting Animation
Protein Trafficking Workshop
You have the following tools:
A cell into which you can introduce (tranfect) DNA
A DNA plasmid into which you can clone any gene you like
A fluorescent-labeled antibody to any protein you want to detect
A piece of double-stranded DNA encoding a potential mitochondrial
signal sequence
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5/21/13
Signal Sequences Have Been Identified Which Target
Proteins to Locations Within the Cell
7