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Bioinformatics Practice Test Questions: Promoter and Regulatory Element Prediction
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Computational prediction of promoters and regulatory elements is especially promising because it has the potential to replace a great deal of extensive experimental analysis.
 

Topics include: Promoter and Regulatory Elements in Prokaryotes & Eukaryotes, & Prediction Algorithms.

 

Bioinformatics Practice Test Questions: Promoter and Regulatory Element Prediction
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25 Questions

1. Which of the following is incorrect regarding Eponine?
2. Which of the following is incorrect regarding the ab initio approaches?
3. Which of the following is untrue about ConSite?
4. Which of the following is untrue about Bayes Aligner?
5. CpGProD is a web-based program that predicts promoters containing a high density of CpG islands _______
6. In bacteria, transcription is initiated by DNA polymerase.
7. In addition to the RNA polymerase, there are also a number of DNA-binding proteins that facilitate the process of transcription.
8. To improve the specificity of prediction, some algorithms selectively ______ coding regions and focus on the upstream regions________ which are most likely to contain promoters. In that sense, promoter prediction and gene prediction are coupled.
9. Which of the following is correct regarding the method for prokaryotic operon prediction?
10. Which of the following is untrue about PhyloCon?
11. To increase the specificity of prediction, a unique feature of eukaryotic promoter is employed, which is the presence of CpG islands.
12. Which of the following is incorrect regarding Cluster-Buster?
13. Once an operon structure is known ______ for the presence of a promoter and regulatory elements _____ in the operon do not possess such DNA elements.
14. Which of the following is untrue about FootPrinter?
15. The promoter sequence may determine the expression of one gene or a number of linked genes downstream.
16. The input for the neural network includes parameters for sequence physical properties, such as ______
17. In CONPRO, for each program, the highest score prediction is taken as the promoter in the region.
18. The TATA box is often used as an indicator of the presence of a promoter.
19. Which of the following is incorrect regarding First EF?
20. TSSW is a web program that distinguishes promoter sequences from non-promoter sequences based on a combination of unique content information such as hexamer/trimer frequencies and signal information such the TATA box in the promoter region.
21. Which of the following is incorrect regarding the Prediction for Eukaryotes?
22. The upstream sequence where the σ protein binds constitutes the promoter sequence.
23. In BPROM, once the operons are assigned, the program is able to predict putative promoter sequences.
24. The specific DNA sequences to which the transcription factors bind are referred to as _____
25. Eukaryotic RNA polymerase II does not directly bind to the promoter, but relies on a dozen or more transcription factors to recognize and bind to the promoter in a specific order before its own binding around the promoter.

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