Bioinformatics Mcqs

Page No. 71

Once an operon structure is known ______ for the presence of a promoter and regulatory elements _____ in the operon do not possess such DNA elements.


aonly the first gene is predicted, whereas other genes

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b only the first hundred genes are predicted, whereas next few genes

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conly first two genes are predicted, whereas next few genes

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donly first ten genes are predicted, whereas next few genes

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Operon prediction is less important in prokaryotic promoter prediction.


a True

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bFalse

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ceither true and false

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dnone of these

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View Answer False

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.


ainclude, (0.5 to 2.0 kb) only

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b include, (0.5 to 2.0 Mb) only

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cexclude, (0.5 to 2.0 Mb) onl

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dexclude, (0.5 to 2.0 kb) only

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Which of the following is incorrect regarding the ab initio approaches?


a The conventional approach to detecting a promoter or regulatory site is through matching a consensus sequence pattern represented by regular expressions

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bThe conventional approach to detecting a promoter or regulatory site is through matching a position-specific scoring matrix constructed from well-characterized binding sites

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cThe consensus sequences or the matrices are relatively short, covering 6 to 10 bases

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d The consensus sequences or the matrices are relatively large, covering 700 to 1000 bases

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The advantage of the ab initio method is that the sequence can be applied as such without having to obtain experimental information.


aTrue

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bFalse

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ceither true and false

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dnone of these

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View Answer True

Ab initio type of algorithm predicts prokaryotic and eukaryotic promoters and regulatory elements based on characteristic sequences patterns for promoters and regulatory elements.


aTrue

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bFalse

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ceither true and false

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dnone of these

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View Answer True

In CONPRO, for each program, the highest score prediction is taken as the promoter in the region.


aTrue

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b False

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ceither true and false

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dnone of these

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View Answer True

Which of the following is incorrect regarding CONPRO?


aIt is a web-based program that uses a consensus method

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bIt is used to identify promoter elements for human DNA

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ccDNA does not play a role in prediction

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dThe program uses the information to search the human genome database for the position of the gene

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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.


aTrue

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b False

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ceither true and false

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dnone of these

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View Answer True

The input for the neural network includes parameters for sequence physical properties, such as ______


aDNA bendability

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bSignals such as the TATA box

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cSignals such as initiator box

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dSignals such as CpAA islands

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