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29-Sep-06 Prof. Steven R. Emory . "Nanoparticle-Based Optical Probes for Bioimaging" .

29-Sep-06 Prof. Steven R. Emory . "Nanoparticle-Based Optical Probes for Bioimaging" . 3:15 pm, CB285. Lehninger: “Molecular Logic”.

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29-Sep-06 Prof. Steven R. Emory . "Nanoparticle-Based Optical Probes for Bioimaging" .

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  1. 29-Sep-06 Prof. Steven R. Emory. "Nanoparticle-Based Optical Probes for Bioimaging". 3:15 pm, CB285.

  2. Lehninger: “Molecular Logic” “A living cell is a self-assembling, self-regulating, self-replicatingisothermal open system of organic molecules operating on a principle of maximum economy of parts and processes; it promotes many consecutive, linked organic reactions for the transfer of energy and for the synthesis of its own components by means of organic catalysts that it produces itself.” Biol/Chem 471; Biol/Chem 472 ; Biol/Chem 473

  3. Elemental composition of the earth’s surface, including crust, oceans and atmosphere. Element Percent by mass Oxygen 49.1 Silicon 26.1 Aluminum 7.5 Iron 4.7 Calcium 3.4 Sodium 2.6 Potassium 2.4 Magnesium 1.9 Hydrogen 0.88 Titanium 0.58 Chlorine 0.19 Carbon 0.09 All others 0.56

  4. Table 1-3 Elemental Composition of the Human Body. Page 29

  5. How does science describe the living state? atoms, subatomic particles…the undiscovered smaller organic molecules Biopolymers/Macromolecules

  6. Table 1-1 Molecular Composition of E. Coli. Page 5

  7. Blue turbulence: chaos and order: WATER!!!

  8. Net dipole moment for water

  9. Lone pair electrons

  10. Phosphatidyl choline Polar headgroup Hydrophobic tail

  11. ATP Adenosine 5’triphosphate

  12. DG = DH - TDS If DG isthe reaction is > 0 thermodynamically unfavorable (reverse reaction is favorable) = 0 at equilibrium (forward and reverse reactions equally favorable) < 0 thermodynamically favorable as written

  13. DG = DGo' + RTlnQ If Q isthen DG is > Keq >0 (reverse reaction is favorable) = Keq =0 (at equilibrium) < Keq <0 (reaction favorable as written)

  14. 13-2

  15. Figure 1

  16. Figure 1-36 The three stages of the evolution of life. Page 30

  17. Figure 1-37 Apparatus for emulating the synthesis of organic compounds on the prebiotic Earth. Page 32

  18. Table 1-4 Yields from Sparking a Mixture of CH4, NH3, H20, and H2. Page 32

  19. Acids, Bases and Buffers!!! • pH = pKa + log [A] • [HA]

  20. Examples: Calculate the pH for a solution of 0.2 M HCl. Add 10 mL of this solution to 50 mL of 0.2 M NaAc (pK=4.7). Now what is the pH? In what pH range is acetate a “good” buffer? How could you prepare 2 L of a solution of sodium acetate pH=5.

  21. Problems in Segel Chapter 1: Don’t worry about problems 1-4, although you should be able to do #4 in a snap. Problems 5-26 are pretty standard strong acid/base stuff. Do a few if you’re rusty. Problems 17-39 give good buffer problem practice.

  22. Voet and Voet Chapter 1: 2, 3 and 5 (conceptually if you don’t like the calculation. I’ll never ask that type of question but it’s good logical practice.), 4 is a 121 question, 6 is just for fun, 7, 8-11 are good reviews of genetics. Chapter 2: 1, 3, 4, 7, 8, 10, 12*, 13-17. Chapter 3: 1 :), 2, 3, 8, Spencer’s gang will love *9, 10, 11 (These calculations are a good warm-up for next quarter.)

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