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


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


conly first two genes are predicted, whereas next few genes


donly first ten genes are predicted, whereas next few genes



Operon prediction is less important in prokaryotic promoter prediction.


a True


bFalse


ceither true and false


dnone of these


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


b include, (0.5 to 2.0 Mb) only


cexclude, (0.5 to 2.0 Mb) onl


dexclude, (0.5 to 2.0 kb) only



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


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


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


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



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


aTrue


bFalse


ceither true and false


dnone of these


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


bFalse


ceither true and false


dnone of these


View Answer True

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


aTrue


b False


ceither true and false


dnone of these


View Answer True

Which of the following is incorrect regarding CONPRO?


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


bIt is used to identify promoter elements for human DNA


ccDNA does not play a role in prediction


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



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


b False


ceither true and false


dnone of these


View Answer True

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


aDNA bendability


bSignals such as the TATA box


cSignals such as initiator box


dSignals such as CpAA islands



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