Teaching+Points+for+Labs+Sp14

Teaching Points For VDS Spring 2014 Labs
show them how to use UTBox. @http://www.utexas.edu/its/cloudstorage/
 * General Tips & Hints **


 * Timestamp for Microsoft Word documents:** ALT + i together, release and hit T
 * Date Stamp for Excel:** CTRL + ;
 * Time Stamp for Excel:** CTRL + SHFT + :

For each week, see folder in VDS Staff Google Docs account for teaching points some are password protected with Mentor password @https://drive.google.com/folderview?id=0B_Gl3lMyhDsoUkZhaG16UjA5b3c&usp=sharing

=NOTES ABOUT EACH LAB:=

Lit Search & Endnote Web
=Buffers & Solutions Lab:= NOTE: the LB amount is WRONG on the handout - they should only make 100ml of LB. ===When they work in pairs - have them start out on the 'expensive' stuff first. That way if they have to finish the lab another day and end up both doing the materials separately - we won't have made too much stuff.===

'Expensive' stuff:
0.100 L LB broth (autoclaved) 200 ml 0.1M Tris base or Trizma base pH 7.5 using conc. HCl (hydrochloric acid) 1 ml 50 mg/ml Amp (filter sterilized) 50 ml 1 M Imidazole (filter-sterilized) 50 ml 10x PBS (Phosphate Buffered Saline, filter-sterilized)

'Cheap' stuff:
50 ml 5 N NaOH (Sodium Hydroxide) 100 ml 5x Tris-Glycine-SDS buffer 10 ml of 30% EtOH (ethanol) in autoclaved water

=PyMOL1= __**Common Comments - Pymol1**__ Improve pics, no 'stretched' images Improve captions Analysis is not analysis, too many instructions or personal reflections Label All atoms Missing labels Missing distance labels Don't use white out, just cross out Caption below figures and above tables Do not write 'this image shows'...

Lab Safety - no liquids in lab to prevent electrocution Materials - computer, PyMol program, helix.pdb, Betasheet.pdb
 * Tips & Hints**

Figure captions - should include "carbons as green, oxygens as red, nitrogens as blue ....... etc. " Show them how to do CROP in Word - to resize images.

When measuring across the helix for the diameter, they won't be able to go directly across the width (it will be on an angle). They should be sure to address this in their comments and/or error analysis.

=Buffer Titration=

=PyMol 2=

=Beer's Law=


 * COMMON COMMENTS - Beer's Law**

Correct images

show calculations

which spec did you use?

enough procedures but not onerous detail that is redundant to lab 1

analysis-error

conclusion-recap

future directions

GRAPHS: 1. max wavelength 2. all readings 3. table with data 4.graph with linear regression

hypothesis: does it hold for all concentrations?

Should mention creating __linear best fit line__ in Excel (don't need to talk about other aspects of Excel since they have already used it)

=PyMol 3=

=Protein Expression=

=Virtual Screening 1=

=Protein Purification Lab= NOTE: each pair will pick just one (1) pellet to purify. The other one should just be kept frozen as backup. - each person should still make their own samples 1,2,3,4,5,6 for the Gel Though

Also, if they use Cyanase - they only need 1 ul of it since the stock concentration is greater than that of benzonase.

=Virtual Screening 2=

=Protein Characterization Lab=

=VS3 lab=

=Target Discovery=

=Enzyme Assay Lab=