Bioinformatics Mcqs

Page No. 65

A common recommendation is to use at least two of the methods—maximum parsimony, distance, or maximum likelihood, for the analysis.


aTrue


bFalse


ceither true and false


dnone of these


View Answer True

In the final steps of the bootstrap method, the _____ the decay value, the _______ significant the original branches.


agreater, less


bgreater, more


clesser, more


d more, less


View Answer greater, more

In the bootstrap method, for branches in the predicted tree topology to be significant, the resampled data sets should frequently predict the same branches.


aTrue


bFalse


ceither true and false


dnone of these


View Answer True

In the bootstrap method, the data are resampled by _____ choosing _____ columns from the aligned sequences to produce, in effect, a new sequence alignment of the _____


a randomly, horizontal, same length


b specifically, vertical, different lengths


c randomly, vertical, same length


d randomly, vertical, different lengths



The choice of a suitable multiple sequence alignment method depends on the degree of variation among the sequences.


aTrue


bFalse


ceither true and false


dnone of these


View Answer True

For sequences that have ________ a phylogenetic analysis is __________


a diverged considerably, more challenging


bnot diverged, more challenging


cdiverged considerably, less challenging


ddiverged considerably, a less work to do



Phylogenetic analysis of a set of sequences that aligns ______ is straightforward because the positions that correspond in the sequences can be readily identified in a ______ of the sequences.


avery well, multiple sequence alignment


b in a haphazard manner, multiple sequence alignment


cin a distorted way, multiple sequence alignment


dvery well, self alignment



RBS finder is a UNIX program that uses the prediction output from Glimmer and searches for the Shine–Delgarno sequences in the vicinity of predicted start sites.


a True


bFalse


ceither true and false


dnone of these


View Answer True

Which of the following is untrue about Glimmer?


aIt stands for Gene Locator and Interpolated Markov Modeler


bIt is a UNIX program from TIGR


cIt does not necessarily use the IMM algorithm


d It is used to predict potential coding regions



Which of the following is untrue about GeneMark?


aIt is a suite of gene prediction programs based on the fifth-order HMMs


bThe main program is trained on a number of complete microbial genomes


cA GeneMark heuristic program can be used to improve accuracy


dIf the sequence to be predicted is from a non-listed organism, the most closely related organism can be chosen as the basis for computation



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