BIF401 Past Papers Page 92

covering Lesson 15, 1525 and 80-86.

QUIZ NO 1 - 23-5-2021

MID TERM

/FI NAL

TER M/SOLVED QUESTIONS

6. Which of the following is untrue about the Unweighted Pair Group Method Using Arithmetic

Average? ___________________________The distances between this new composite

taxon and all remaining taxa are calculated to create a reduced matrix

7. Bioinformatics can deliver: _________________________________________All of the above
8. GenBank and SWISSPORT are example of _________________________Primary Database
9. The study of full complement of proteins expressed by a genome is called ______Proteomics

10. How many reading frames exist for a double-stranded DNA sequence?_______________ Six

11. Which one of the following methods can be used for statistical evaluation of data? _______

__________________________________________________________________ Both A&B

12. How many proteins does the human body produce? ______________________Hypothesis

of wo gene = one protein So, there should at least *10,000

13. How many proteins does the human body produce?____________ Hypothesis of “One

gene = two protein” So, there should at least ~40,000

14. Translation is the process in which ____________Protein is formed on RNA template

15. mRNA directs the building of proteins through a sequence of_ _________________Codons

16. The procedure of aligning two sequences by searching of patterns that is in the same order in

the sequences? ___________________________________________Sequence Alignment

17. GenBank database is maintained by ______________________________________

_________________________National Centre of Biotechnology Information (NCBI)

18. Before starting to match nucleotides or amino acids, we need to find the _____________

19. Which of the following does not describe local alignment_____________________________ ____________________________________________local alignment have terminal gap

20. Tandem MS helps us to measure masses of _____.___ Fragments

21. ____ are the unit of protein ________________________________________Amino acids

22. Choose the incorrect statement out of the following ._____ tyrosine is a modified amino acid

23. The identification of drugs through genomic study is known as _________ Pharmagenatics

24. Amino acids are chained together by ________________________________ peptide bond

25. The alignment method suitable for finding out conserved patterns in DNA or protein sequences

is ___________________________________________________________ Local alignment

26. Which of the following is incorrect regarding Mass Spectrometry Protein Identification?

_____________ The proteolysis doesn’t generate a pattern according to molecular weight

27. Amino acids are mostly synthesized from_________________ Alpha-ketoglutaric acids

28. Which of the following is the character based phylogenetic tree construction method? _____

________________________________________________________maximum parsimony

29. Pairwise Sequence Alignment is used to identify regions of similarity that may indicate

________________________________________________functional, structural and/or

evolutionary relationships between two biological sequences

30. In dot plot, when the two sequences have substantial regions of similarity many dots line up to

form contiguous _______ lines._____________________________________ Diagonal

31. Knowing____ should be enough to find the required entry quickly______________________

___________________________accession number ‘ protein name or name of gene

32. Bioinformatics is a becoming a popular science due to _______________ all of the above

33. Which of the following is the correct order of organization of genetic material from largest to

smallest? ___________________________ Genome, Chromosome, Gene, Nucleotide 34. A collection of seeds, plants, or animals, maintained as a repository of genetic material,

typically to preserve genetic diversity_____________________________________ Gene Bank

35. Number of chiral centers in isoleucine is_________________________________________ 2

36. BLAST uses a _______ to find matching words, whereas FASTA identifies identical matching

words using the _____.____________________ substitution matrix, hashing procedure

37. For which one of the following activities bioinformatics is used in modern biological

sciences__________________________________________________________ both a and b

38. Glycoprotein antibodies produced by ___ plasma cell. __________________________ WBC

39. __________ is a biological information search engine maintained by NCBI._____ ESEMBLE

40. Which of the following does not describe dynamic programming?____ The method can be

useful in aligning protein sequences to protein sequences only

41. In the Neighbor Joining step, The UPGMA method uses unweighted distances and assumes

that all taxa have constant evolutionary rates.___________________________________ TRUE

42. Sequencing of genomic DNA is included in____________________ Structural genomics

43. Human genome contains about______________________________ 3 billion base pairs

44. Translation takes place before transcription.________________________________ FALSE

Quiz no 1 December 2020

1. Scoring Matrices contains, _______________________________Both +VE and -VE values
2. Progressive alignment methods use the dynamic programming method to build a MSA starting

with the most related sequences and then progressively adding less related sequences or groups

of sequences to the initial alignment?__________________________________________TRUE

3. The correct order of progressive alignment steps for multiple sequence alignment is ___

_______________________Pairwise alignment, Guide tree, Branching order in tree

4. Name any two frequently used scoring matrices ____________________BLOSUM and PAM
5. The ….tool compares nucleotide sequence against DNA database.__________________blastn
6. The…. E-Value. the more significant the hit. ___________________________________Lower
7. Your lab partner is using BLAST, and his best E-value is 3. This means that __________There

would be 3 matches that good in a database of this size by chance alone

8. Which of the following is not a benefit or a factual of FASTA over BLAST? __________
9. In dynamic programming we can do multiple sequence alignment up to._______21 sequences
10. BLASTX uses protein sequences as queries to search against a protein sequence database.

_________________________________________________________________-_____FALSE

11. compares protein sequence against protein databases.____________________________blastp
12. Which of the following is not a variant of BLAST?____________________________TBLASTNX
13. CLUSTALW is a more recent version of CLUSTAL with the W standing for ________Weighting
14. Which one of the following is not a Sequence Alignment Tool"?____________________rasmol
15. Which of the following is untrue about the modification of PAM matrices?_ _____________
16. The BLAST program was developed in__________________________________________1990
17. Which is the default scaring matrix used in BLAST?_________________________BLOSUM 62
18. In multiple sequence alignment (MSA), we have ______________________Global alignment
19. The scoring of gaps in a MSA (Multiple Sequence Alignment) has to be performed in a different

manner from scoring gaps in 4 pair-wise alignment? _____________________________FALSE

20. Which of the following doesn't describe PAM matrices? _______________________

________________________________________it stands for Percent Altered Mutation

1. FASTA achieves alignment by using ___________________short lengths of exact matches.

2. Dot plots cannot capture ____________________insertions, deletions and gap indications

3. Dot plots employ dot matrix with two sequences plotted on _______top and left of the matrix

4. In multiple sequencing, we have _____________________________________________both

5. 6.

7. Blast can find sequencing from protein or nucleotide database

__________________________________________it can find known and unknown sequencing.

8. is used to known about unknown sequences of nucleotide. __ Next generation sequencing

9.

10. : Structural information of a molecule obtained by

___________________________________X ray crystallography & Nuclear magnetic resonance.

11.

12. Bioinformatics is an interdisciplinary relative new development of________________________

_________________________biology, mathematics, computer science, chemistry and physics.

13. Fasta online software Can also perform genome and proteome similarity search ._______true

14. From Fasta we can obtain the information _________________________________________

_________________________________on the parent organism, function and evolution history.

15.

16. Amino acids are chained together by _________________________________peptide bonds

17. To find out the unknown sequence of nucleotide and protein we use ________________blast.

18. GenBank and Uniprot, have ___A large number of sequences are available in publically .

19. Protein databank is a _________________________________________________data base

20. In dynamic programming we can do multiple sequence alignment upto _____21 sequence .

21. How many types of secondary structure can be formed possible of RNA? ______________5.

22. RNA structures have the ….quantity of free energy. _________________- lowest (or close)

23. In a dot matrix, two sequences to be compared are written in the _______ of the matrix.__

_____________________________________________________ Horizontal and vertical axis

24. RNA can play role due to its structure . _________________________________all of above.

25. Rna contains …..sugar? ________________________________________________ ribose

26. Thymine is replaced by …..in rna. _________________________________________ uracil

27. RNA molecules readily degrade due to their ….shelf life . _______________________ short

28. Each Nucleotide in rna has …..to the backbone . __________________ covalently bonded

29. If a problem can be broken into subproblems which are reused several times, the problem

possesses ____________ property._____________________________ Overlapping subproblems

30. When dynamic programming is applied to a problem, it takes far less time as compared to

other methods that don’t take advantage of overlapping subproblems.___________________ TRUE

31. Nucleotide in RNA are joined by________________________ 5’3’ phosphodiester bond

32. …is the free energy of an RNA molecule available for reaction . _____Gibbs Free Energy”

33. The structure of rna sampled can be measured by._____________Atomic Force Microscopy

34. The 3’-end of ….has a poly A tail _________________________________________ mRNA

35. The role of ….Carry genetic information from DNA to Ribosomes where proteins are being

assembled . ______________________________________________________________ mRNA

36. Messenger rna is only ….of rna content in the cell. _____________________________ 5-10%

37. Gaps are produced by ____________________________________insertion or deletion

38. Example of energy base _______________________________________Zuker algorithm.

39. .. forms of DNA rending sequence. ___________________________________________two

40. Translation involves coding of protein by …at ribosome. ________________________RNA

41.

42. By comparing sequence we can get ____________________________________similarity,

specific difference, relationship, evolutionary insight.

43. Non clustering method include _____________________________Maximum parsimony.

44. Destabilizing energy of a nucleotide has _____________________________(+) value.

45. Comparison of protein sequence can be done with…__________________________Uniprot