APh 162 - Biological Physics Laboratory
Instructor:
Rob Phillips
Winter 2005
Winter 2005
Effect of chain length and unsaturation on elasticity of lipid bilayers
Forces During Bacteriophage DNA Packaging and Ejection
Effect of chain length and unsaturation on elasticity of lipid bilayers
Forces During Bacteriophage DNA Packaging and Ejection
[ Announcements | Class Schedule | Lab Times & Groups | Assignments | Course Info | Reading Material | Protocols | Student Webpages - Results and Images | Contact ]
Announcements
- **We decided that if you want to submit your webpages as PDF's that's OK.** 1/31/05
- The first student webpages are now online (see the Results section). If you have not submitted your webpage, please do so to avoid any loss of credit.
- Due to copyright issues, our class paper database has to be username/password protected, class members will be able to access the database.
- Remember: For aph162, vesicles rule!
- Prof. Phillips will be away on travel during the first week of class hence we will have our first class January 10th
- ***Please make sure to have a proper lab notebook to use during the term!!
- It would be quite helpful if there was at least one person in each group that knows how to make a simple webpage for posting experimental results.
- Amino Acids: Structure, Composition, and Correlations
Class Schedule
-
Course Outline
- Week 2: Spatial and Temporal Scales, note that some of these temporal experiments will be ongoing through the term (such as the Medaka Embryos)
- Week 3: DNA Science - Restriction and Gel Electrophoresis \ PGLo Transformation (Expressing GFP)
- Week 4: Quantitative PCR and Comparison with Normal PCR via Gel Electrophoresis
- Week 5:
- Week 6:
- Week 7:
- Week 8:
- Week 9:
Lab Times and Groups:
The current lab schedule (as decided during the organizational meeting) is:- Monday 7-10 PM
- Thursday 3-6 PM
- Friday 8:30-11:30 AM
Assignments
- For the upcoming diffusion lab (and considering the ubiquitious nature of diffusion in biology) you will need to review some theory behind diffusion, and how diffusion coefficients relate to temperature and viscosity. 2D Diffusion (PDF)
- T1: Do whatever Rob told you about area relations and mitochondria. Calculate lift needed by flies, does actual wing size make sense?
- T3: Do all those wormy calculations, if you're in dire need of help, let me know.
Lab Protocols
- Microsopce Spatial Calibration and Resolution
- Electroformation of Vesicles
- Using the Gel Camera
- Restriction Digest and Gel Electrophoresis
- Using YOYO Dye to Stain DNA
- Preparation of Plates with Rich Medium
- Preparation of Liquid Medium
- Staining Mitochondria and Actin Filaments
- Making Electrophoretic/Agarose Gels
Student Webpages - Results and Images
- (These are precisely the quality we're looking for.)
- Joe and Suvir - Weeks 1 & 2 - Beautiful Pictures! (Revised)
- Jen and Matt - Week's 1 & 2 - Great Diffusion Analysis
- Joe and Suvir - Week 2 - Beautiful Pictures! (Revised)
- Kevin and My (and Will) - Week's 1 and 2 - Great First Analysis of Fly Wing "Dynamics"
- Genti, Lotty, Barrett, and Isabella - Week 2 - Nice Analysis of the Beta-galactosidase Assay
- Gabe and Harry - Week 1 and Week 2 - A good look at the Medaka!
- Jeff, Rosalyn, and Elena - Week's 1 and 2 - Good Job on the Scaling, and not too shabby for finding the viscosities!
- Hesper, Ian and Jiame - Week 1
- Dylan, Jenn, and My - Week 1 - The awesome worms!
- Gel's From Most Recent Class 2/7/04
- Gel's From last Class 2/?/04
- Jenn and Barrett's Work with an Optical Trap
- Joe and Suvir - Fun with DNA - A nice summary of the pGLO Plasmid Assay
- Dylan, Jenn, and My - Week 1 - The awesome worms!
Reading Material
Contact Information
Rob Phillips
221 Steele
x3374
phillips-at-pboc-dot-caltech-dot-edu
Office hours: TBA
Tristan Ursell
235 Steele
x3333
natsirt-at-caltech-dot-edu
Office hours: 1pm to 3pm Monday
Hernan Garcia
230 Steele
x5876
hgarcia-at-caltech-dot-edu
Office hours: 1pm to 3pm Wednesday