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Algorithmic Thinking in Bioinformatics Quiz 2: 2 April 2023, Set QPE3 (January 2023 term)

Question 1

+4 marksNumerical answer

You enter an alien world as a renowned computational biologist. The below table is presented to you as a part of a preliminary study done by a group of scientists to study the local fauna around the base camp. They analyze the DNA and figure out that there are only two bases “+” and “0”. The below table represents the DNA sequence in 6 positions for the different species found. You build a phylogenetic tree that best represents the evolutionary relationship among the species, using the Neighbor-Joining algorithm (on the Hamming distance matrix).

You enter an alien world as a renowned computational biologist. The below table is presented to you as a part of a preliminary study done by a group of scientists to study the local fauna around the base camp. They analyze the DNA and figure out that there are only two bases “+” and “0”. The below table represents the DNA sequence in 6 positions for the different species found. You build a phylogenetic tree that best represents the evolutionary relationship among the species, using the Neighbor-Joining algorithm (on the Hamming distance matrix).
Based on the above data, answer the given subquestions

The length or weight of the internal edge (i.e., non-limb edge) in the inferred phylogenetic tree is____________ . Fill in the blank.

Question 2

+3 marksOne or more correct options

You enter an alien world as a renowned computational biologist. The below table is presented to you as a part of a preliminary study done by a group of scientists to study the local fauna around the base camp. They analyze the DNA and figure out that there are only two bases “+” and “0”. The below table represents the DNA sequence in 6 positions for the different species found. You build a phylogenetic tree that best represents the evolutionary relationship among the species, using the Neighbor-Joining algorithm (on the Hamming distance matrix).

You enter an alien world as a renowned computational biologist. The below table is presented to you as a part of a preliminary study done by a group of scientists to study the local fauna around the base camp. They analyze the DNA and figure out that there are only two bases “+” and “0”. The below table represents the DNA sequence in 6 positions for the different species found. You build a phylogenetic tree that best represents the evolutionary relationship among the species, using the Neighbor-Joining algorithm (on the Hamming distance matrix).
Based on the above data, answer the given subquestions

Consider the two distance matrices DM1 and DM2 shown below. Which of the following statement(s) is/are true?

Consider the two distance matrices DM1 and DM2 shown below. Which of the following statement(s) is/are true?

Select all that apply.

  1. A

    DM1 is additive, and DM2 is additive.

  2. B

    DM1, but not DM2 is additive

  3. C

    There exists an ultrametric tree that fits DM1, but not DM2.

  4. D

    There exists an ultrametric tree that fits DM2, but not DM1.

Question 3

+2 marksOne correct option

Which of the following is/are false about UPGMA?

  1. A

    UPGMA is a simple clustering heuristic that proceeds via iterative pairwisegrouping in each step.

  2. B

    Given a distance matrix, it starts by grouping two taxa with the largestpairwise distance in the distance matrix.

  3. C

    The distances between this new composite taxon and all remaining taxa arecalculated to create a reduced matrix.

  4. D

    The grouping process is repeated and another newly reduced matrix iscreated.

Also asked in Quiz 2 2 Apr 2023

7 more questions in this paper

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More on the Algorithmic Thinking in Bioinformatics Quiz 2 2 Apr 2023 Set QPE3 paper

The IIT Madras BS Algorithmic Thinking in Bioinformatics (Algorithmic Thinking in Bioinformatics) Quiz 2 paper sat on 2 Apr 2023, in the January 2023 term, set QPE3: 10 questions for 37 marks in 120 minutes. The first 3 questions are below. Sign in with Google — it is free — to see the whole paper with its answers and explanations, in learning mode or as a timed mock test.

FeatureAlgorithmic Thinking in Bioinformatics Quiz 2 2 Apr 2023 Set QPE3 at a glance
TermJanuary 2023 term
SubjectAlgorithmic Thinking in Bioinformatics
Course codeBSBT4001
Questions10
Marks37
Duration120 min
Numerical1
MSQ1
MCQ8
Official paperIIT M DEGREE AN3 EXAM QPE3 02 Apr 2023
Negative markingNo negative marking.
Updated

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