Bioinformatics Mcqs

Page No. 20

Block analysis methods use substitution matrices such as the PAM and BLOSUM matrices to score matches.


a True


bFalse


ceither true and false


dnone of these


View Answer False

Which of the following is untrue regarding the block analysis method?


a Blocks represent a conserved region in the MSA


b Blocks differ from profiles in lacking insert and delete positions in the sequences


cEvery column includes only matches and mismatches


dBlocks may be made by searching for a section of an MSA alignment that is low conserved



The program Profilemake can be used to produce a profile from an MSA.


a True


b False


ceither true and false


dnone of these


View Answer True

Profiles are found by performing the _____ MSA of a group of sequences and then removing the _______ regions in the alignment into a smaller MSA.


alocal, more highly conserved


bglobal, low conserved


cglobal, more highly conserved


d local, low conserved



Which of the following is not among the methods for finding localized sequence similarity?


aProfile Analysis


b Block Analysis


c Extraction of Blocks from a Global or Local MSA


dPattern blocking


View Answer Pattern blocking

Which of the following about the Gibbs sampler is untrue?


aIt is a statistical method for finding motifs in sequences


b It is dissimilar to the principle of the EM method


cIt searches for the statistically most probable motifs


d It can find the optimal width and number of given motifs in each sequence



Which of the following about MEME is untrue?


aIt is a Web resource for performing local MSAs (Multiple Sequence Alignment) by the above expectation maximization method is the program MEME


bIt stands for Multiple EM for Motif Elicitation


c It was developed at developed at the University of California at San Diego Supercomputing Center


dThe Web page has multiple versions for searching blocks by an EM algorithm



An alternative method is to produce an odds scoring matrix calculated by dividing each base frequency by the background frequency of that base.


a True


b False


ceither true and false


dnone of these


View Answer True

For the 10-residue DNA sequence example, there are _______ possible starting sites for a 20-residue-long site.


a30


b 21


c81


d60


View Answer 81

In the intermediate steps of EM algorithm, the number of each base in each column is determined and then converted to fractions.


aTrue


bFalse


ceither true and false


dnone of these


View Answer True

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