(Answered)-The following are more than a couple of sentence answer questions - (2025 Updated Original AI-Free Solution

Question

1. The following are more than a couple of sentence answer questions (3pts each).
3. Nanopore sequencing is the up and coming new technology for DNA sequencing. Explain how it works.
5. Compare and contrast the benefits and pitfalls of the TALEN and Zinc finger procedures.
7. For zinc finger technology the Fok I nuclease is used. What class of enzymes does Fok I belong? What is special about Fok I that makes it useful for zinc finger cleavage?
9. Explain the process for miRNA processing.
11. Explain the hypothesis of the speed bump model for histone modification of alternative splicing.
13. Different histone methylation modifications effect whether an exon is included or excluded from a final mRNA. Explain the process.
15. Alternative splice variants are theorized as the reason that organisms can become more complex without necessarily adding more genes. Explain how this works.
17. Explain the CLIP assay for discovery of splice accessory proteins. Remember very close to CHiP assay.
19. For determination of sites where DNA is methylated we discussed a couple different techniques. Name and explain ONE of these procedures.
21. You several libraries of EST sequences derived from a dozen different specific cell types. Explain how this helps you define the intron exon boundaries for genes in the organism.
23. You wish to determine which alternative splice variants are expressed in a specific cell culture.?? Name and explain a technique to do this.
25. A gene for a membrane protein has a series of different exon that all will code for different cytoplasmic regions of the protein. How does this help increase the diversity of the function for this one gene depending on which exon selected in a certain cell type?
27. Synthetic biology was used to produce the malaria drug artemisinic acid in yeast. Explain the synthetic biology steps changed in order to produce the artemisinic acid.
29. For communication between RTRACS modules engineers wanted a natural molecule that is easy to make, and nicely unstable so signal controllable. What is this molecule and what properties make it useful for a signal transfer molecule?
31. When defining the stability of a biological or a small molecule after injection what four letter acronym is used and what does each letter stand for?
33. Explain target based drug screening.
35. If you wanted to use Zebrafish as a model organism for a human disease what analytic comparisons of the two genomes should be done first?
37. What are the standard gene factors that need to be expressed in skin fibroblasts in order to potentially produce IPSCs
39. We discussed epigenetic states that have been found to differ between ESC and IPSC cells. Name and explain one of these.
41. ?
44. ?

The following are more than a couple of sentence answer questions (3pts each).

1. Nanopore sequencing is the up and coming new technology for DNA sequencing. Explain how it
works.

2. Compare and contrast the benefits and pitfalls of the TALEN and Zinc finger procedures.

3. For zinc finger technology the Fok I nuclease is used. What class of enzymes does Fok I belong?
What is special about Fok I that makes it useful for zinc finger cleavage?

4. Explain the process for miRNA processing.

5. Explain the hypothesis of the speed bump model for histone modification of alternative splicing.

6. Different histone methylation modifications effect whether an exon is included or excluded from
a final mRNA. Explain the process.

7. Alternative splice variants are theorized as the reason that organisms can become more complex
without necessarily adding more genes. Explain how this works.

8. Explain the CLIP assay for discovery of splice accessory proteins. Remember very close to CHiP
assay.

9. For determination of sites where DNA is methylated we discussed a couple different techniques.
Name and explain ONE of these procedures.

10. You several libraries of EST sequences derived from a dozen different specific cell types. Explain
how this helps you define the intron exon boundaries for genes in the organism.

11. You wish to determine which alternative splice variants are expressed in a specific cell culture.
Name and explain a technique to do this.

12. A gene for a membrane protein has a series of different exon that all will code for different
cytoplasmic regions of the protein. How does this help increase the diversity of the function for
this one gene depending on which exon selected in a certain cell type?

13. Synthetic biology was used to produce the malaria drug artemisinic acid in yeast. Explain the
synthetic biology steps changed in order to produce the artemisinic acid.

14. For communication between RTRACS modules engineers wanted a natural molecule that is easy
to make, and nicely unstable so signal controllable. What is this molecule and what properties
make it useful for a signal transfer molecule?

15. When defining the stability of a biological or a small molecule after injection what four letter
acronym is used and what does each letter stand for?

16. Explain target based drug screening.

1. If you wanted to use Zebrafish as a model organism for a human disease what analytic
comparisons of the two genomes should be done first?

2. What are the standard gene factors that need to be expressed in skin fibroblasts in order to
potentially produce IPSCs

17. We discussed epigenetic states that have been found to differ between ESC and IPSC cells. Name
and explain one of these.