BE/ECE/NE 247B Bioelectronics (Final Exam Thursday March 21, 2013)

Final Exam Info and Some Tentative Questions

Michael J. Heller, PhD
Departments Nanoengineering & Bioengineering University of California San Diego

247B Bioelectronics 2013 Final Exam Thursday 7-10pm

1. Study all the lectures materials after the mid-term exam 2. Review the papers in Ref Set 5 (DEP) and Ref Set 6 (DNA Sensors) 3. Turn in your one page synopsis of your class presentation at the start of the final exam.

4. You can use any notes or references

5. I will be available today from 3-6pm, Wednesday from 3-6pm and Thursday before the exam from 4-7pm

Always a Favorite Final-Exam Question

Draw what you think the ionic interface structure (double layer/diffuse layer) looks like around the negatively charged phosphate groups of this DNA molecule (~1 nM) in an electrolyte solution of V(cations), W(anions) and X(histidine again and some other amino acids/peptides) at Y(concentration) and Z(pH)

247B BioElectronics Always More on Double layers !!!

Rigid double layer potential Diffuse double layer potential (Zeta Potential)

According to Sterns model, a rigid double layer of adsorbed ions (Helmholtz layer) is superposed by a diffuse double layer (GouryChapman or Debye-Huckel layer) allowing diffusion of ions by thermal motion.

Other Tentative Final Exam Questions

(1) Considering the emphasis on electronic detection of DNA (Refs on Clinical Microsensors, DNA Biosensors and Lectures). Describe several of the key DNA Biosensor technologies and how they work.
(2) Why have the numerous attempts over the past 20 years to design so-called single molecule DNA sensors failed to achieve single nucleotide polymorphism (SNP) discrimination when using unamplified genomic DNA? Discuss some of the device limitations and the basic issues regarding DNA hybridization, (3) (3) Give a complete description of the physical basis of dielectrophoresis (DEP) including positive DEP; negative DEP; and the Clausius-Mossotti factor, etc. b) Describe electroratation and traveling wave DEP. c) Provides examples of how DEP is used in biology, chemistry and nanotechnology. (4) What was the basis for conductance limitations for most classical DEP devices and applications? How was the limitation overcome? (see Krishnan DEP lecture and refs) (5) A question like - Explain how a layer of 100 bp single-stranded DNA molecules and a layer of 100 bp double-stranded DNA molecules which are covalently bound at one end to the surface of a gold electrode would behave under the influence of a pulsing (one second on/one second off) DC electric field at (a) 0 volt: (b) 0.1 volt; (c) 0.5 volts and (d) 10 volts? (Assume DNA is in 100 mM NaCl at pH 7.0) (6) See Ref Set #6 Ref-44, Oxford Nanopore may not be accurate enough for sequencing ??? (7) Pick any other reference in Ref Set #6 and discuss in detail.

mheller@ucsd.edu
(858) 822-5699 SME Building, Rm 243J