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QUESTION ID:1

A representative sequence profile of a given nucleotide binding domain is to be used to mine related sequences from TrEMBL. The database to be used to extract the query corresponding to this fold is:

QUESTION ID:2

The figure represents a dot plot comparing two genomes X and Y. The portion marked N is a/an:

QUESTION ID:3

Which one of the following methods is most accurate in rescoring docked ligandprotein complexes?

QUESTION ID:4

A reference set of molecules is experimentally assayed for xenobiotic toxicity using the MTS assay which is a colorimetric measurement of cell viability. As part of the
lead optimization step in drug discovery, which one of the following steps can be used to predict the toxicity of a new set of compounds?

QUESTION ID:5

In a de novo RNASeq analysis, the typical steps are (1) transcript assembly, (2) cluster sequence contigs and construct complete de Bruijn graphs for each cluster, and
(3) separate the de Bruijn graph to full length alternatively spliced isoforms or transcripts from paralogous genes. Which one of the following statements is INCORRECT in this context?

QUESTION ID:6

For Gene Set Enrichment Analysis (GSEA), differentially expressed genes are grouped into broader functions. A typical tool/resource used for this purpose is:

QUESTION ID:7

Two types of pair-wise sequence alignment of the same hypothetical protein sequence fragments are illustrated in the figure below. Vertical bars between the
sequences indicate the presence of identical amino acids. * symbols in Figure Y indicate residues not included in the alignment.

Which one of the following is correct?

QUESTION ID:8

Match the items in Group I with Group II with reference to a database search for identifying homologs of human hemoglobin.

Group IGroup II
(P) Sensitivity(1) Measure of how many correct hits are found
(Q) 100% Sensitivity(2) Measure of how many hits found are correct
(R) Specificity(3) Measure indicating that all correct hits are found
(S) 100% Specificity(4) Measure indicating that all hits found are correct

QUESTION ID:9

The following phylogenetic tree of five sequences (A-E) indicates:

QUESTION ID:10

Genes or proteins that display the same activity, but have different origins and are the product of convergent evolution, are called:

QUESTION ID:11

Match the type of BLAST programs given in Group I to the particular type of sequence search task described in Group II

Group IGroup II
1. tblastnP. A nucleotide sequence is to be used as a query to search for similar proteins against a nucleotide database
2. tblastxQ. A nucleotide sequence is to be used as a query to search against a protein database
3. blastx
4. blastn

QUESTION ID:12

In a multiple sequence alignment of homologous protein sequences, a region of multiple insertions and deletions indicates the presence of:

QUESTION ID:13

Two charged molecules are at a distance ‘r’ from each other. Which one of the following is correct regarding the electrostatic interactions between them?

QUESTION ID:14

The structure of two molecules P and Q with three atoms (u, v, w) each, are defined by coordinates given below.
The root mean square deviation between the two structures is:

QUESTION ID:15

A novel protein from a deep sea archaebacterium was identified and sequenced. The sequence is expected to be widely divergent from known sequences. Which scoring
matrix will produce the most appropriate alignment in a search for homologs in the NCBI database?

QUESTION ID:16

The measured values of main chain torsion angles of a residue in a polypeptide has values (Φ=+50, Ψ=+60). What type of secondary structure is it most likely to be
present in?

QUESTION ID:17

Which one of the following experimental methods is NOT used to determine threedimensional structures of biological macromolecules?

QUESTION ID:18

Which one of the following is NOT an assumption of an evolutionary model of the PAM matrix?

QUESTION ID:19

Which one of the following is a valid assumption regarding the molecular clock hypothesis in evolution?

QUESTION ID:20

Which of the following is NOT true of protein folds?