vu bif401 Final Term - Quiz No.6

vu bif401 Bioinformatics I Quiz

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Question 1: Zuker's Algorithm involves energy __________.

Maximization

Minimization

Stabilizing

Destabilizing

Question 2: __________ compares protein sequence against protein databases.

blastp

blastn

blastx

tblastx

Question 3: RNA is the genetic material in

Viruses only

In some viruses and some prokaryotes

In some viruses and some prokaryotes and rarely in eukaryotes

Only in some viruses

Question 4: Which of the following doesn't describe PAM matrices?

This familt of matrics list the likelihood of change from one amino acid to another in homologous protein sequences during evolution

There is presently no pther type of scoring matrix that is based on such sound evolutionary principles as are these matrices

Even though they were originally based on a relatively small data set, the PAM matrices remain a useful tool for sequence alignment

It stands for Percent Altered Mutation

Question 5: Which of the following is untrue anout the modification of PAM matrices?

At one time, the RAM250 scoring matrix was modified in an attempt to improve the aligment obtained

All scores for matching a particular amino acid were normaliszed to the same mean and standarf deviation, and all amino acid identities were given the same score to provvide an equal contribution for each amino acid in sequence alignment

This took palace in 1976

These modifications were included as the default matrices for the GCG sequence alignment programs in in versions 8 and earlier and are optional in later versions

Question 6: All of the following are protein sequence databases except __________.

PIR

PSD

Swiss Prot

EMBL

Question 7: Which one of the following are Archaea?

Firmicutes

Chlamydiae

Thermococci

Chlorobi

Question 8: Which one of the following methods can be used for statistical evaluation of data?

T-test

ANOVA

Both 1 & 2

None of the given

Question 9: Which of the following doesn't describe local alignment?

A local alignment aligns a substring of the query sequence to a substring of the target sequence

A local alignment is defined by maximizing the alignment score, so that deleting a column from either end would reduce the score, and adding further columns at either end would also reduce the score

Local alignments have terminal gaps

The substrings to be examined may be all of one or both sequences; if all of both are included then the local alignment is also global

Question 10: The procedure of aligning two sequences by searching of patterns that is in the same order in the sequences?

Sequence Alignment

Pairwise Alignment

Multiple Sequence Alignment

All of the given