Syllabus Bio 437 Molecular Biology
Fall 2005
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Instructor: Jeffrey D. Newman Room: Heim 107 Phone: 570-321-4386 email: newman@lycoming.edu office hours: : T 2:00-3:00 PM W 3:30-4:30 PM |
Lecture meets MWF 2:00 3:05 in Heim 106 Lab meets Thurs 1:00-3:50 in Heim 106 Course web page: http://www.lycoming.edu/~newman/courses/bio43704 |
Catalog Description of Course: An in-depth analysis of fundamental cellular information flow processes with particular emphasis on how these processes have been harnessed in the laboratory, resulting in technologies such as DNA cloning and sequencing, the Polymerase Chain Reaction (PCR), genetic testing, gene therapy, genetic engineering, DNA forensics, and construction of gene libraries. Two hours of lecture, a one-hour lab and a three-hour lab per week. Prerequisites: BIO 110-111 and one semester of organic chemistry.
Text: Lodish et al. Molecular Cell Biology 5th edition, 2004
Grades will be determined based on the following assessments:
2 exams (mid-term, final) 2 x 150 pts = 300 pts
Journal article presentation 50 pts
Integrated Informatics Project
-nucleic acid and protein sequence analysis 50 pts
-protein structure analysis 50 pts
-literature review 50 pts
2 lab reports 2 x 100 pts = 200 pts
(site directed mutagenesis, gene expression analysis)
Total
possible 700
pts
|
|
B+
= 87.5 - 89.9% |
C+
= 77.5 - 79.9% |
D+
= 67.5 - 69.9% |
|
|
A
= 92.5 100% |
B
= 82.5 87.4% |
C
= 72.5 77.4% |
D
= 62.5 67.4% |
F=
below 60% |
|
A-
= 90.0 92.4% |
B-
= 80.0 92.4% |
C-
= 70.0 72.4% |
D-
= 60.0 62.4% |
|
Course Schedule
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Lecture Topics (chapter) |
Lab Activities |
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Week 1 |
Introduction, Essential Chemistry (1,2) |
GCAT preliminary assessment |
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Week 2 1/19 1/23 |
Protein Structure/Function (3) |
Protein structure analysis with Protein Explorer (computer lab) |
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Week 3 1/26 1/30 |
Basic Molecular Genetics (4) |
Use of databases, Nucleic acid and protein sequence analysis (computer lab) |
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Week 4 2/2 2/6 |
Molecular Genetic Techniques and Genomics (9) |
Begin Integrated Informatics Project (computer lab) F GFP Site directed mutagenesis lab overview 1st PCR, prepare gel |
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Week 5 2/9 2/13 |
Molecular Genetic Techniques and Genomics (9) 2/13 IIP Annotated bibliography due |
R Gel purify fragments, set up 2nd PCR, new gel, check phenotype F Check 2nd PCR product on gel, spin-column purify fragment, Set up restriction digest. |
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Week 6 2/16 2/20 |
Gene & Chromosome Structure (10) |
R Prep competent cells, Ligation, Transformation. F Pick colonies, inoc for minipreps |
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Week 7 2/23 2/27 |
Gene & Chromosome Structure (10) 2/25 Midterm Exam |
R Minipreps, set up gel, restriction digest. check phenotypes RF Check RE digest on gel, discuss lab report |
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Week 8 3/8 3/12 |
Regulation of Transcription (11) 3/12 IIP Sequence Analysis Due |
R - discuss microarray experiment, grow yeast under different conditions. F Isolate yeast, store in RNAlater |
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Week 9 3/15 3/19 |
Regulation of Transcription (11) 3/19 Site-directed mutagenesis lab report due |
R Isolate RNA from yeast, run, stain RNA gel F Northern Transfer |
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Week 10 3/22 3/26 |
RNA Processing (12) 3/26 IIP Structure analysis due |
W Set up RT-PCR, gel R Examine RT-PCR products, Prepare probes for Northern Blot, Microarray F Hybridize probe against blot |
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Week 11 3/29 4/2 |
RNA Processing (12) 4/2 IIP Text Due |
W Hybridize cDNA to microarray. R Northern detection. Wash microarray, send for scanning |
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Week 12 4/5 4/9 |
Developmental Genetics (15) |
R Journal Article Presentations |
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Week 13 4/12 4/16 |
The Cell Cycle (21) |
R, F Analyze microarray data (computer lab) Discuss Lab report |
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Week 14 4/19 4/23 |
Cancer (23) 4/23 Gene Expression Lab Report Due |
R-GCAT Assessment, Work on lab report or poster as group |