LOYOLA COLLEGE (AUTONOMOUS), CHENNAI – 600 034

B.Sc. DEGREE EXAMINATION – PLANT BIOLOGY & PLANT BIO-TECH.

VE 10

FOURTH SEMESTER – April 2009

PB 4208 – BIOINFORMATICS – II (GENOMICS & PROTEOMICS)

 

 

 

Date & Time: 27/04/2009 / 9:00 – 12:00  Dept. No.                                               Max. : 100 Marks

 

 

PART A

Answer all the questions                                                                              (20 marks)

 

I      Choose the correct answer                                                                  (5 x1  = 5)

 

1. C score determines the ______
2. a) signal peptide b) signal peptide cleavage site score
3. c) mature protein d) protein secondary structure.

 

2. ______ is a database of interacting proteins.
3. a) Protein blast b) DIP           c) proteomedb               d) ncbi

 

3. _______is a database of metabolic pathways
4. a) kegg b) ncbi            c) enzymedb                d)TIGR

 

4. _____ is the software used to identify splice sites.
5. a) nebcutter b) BDGP         c) spliceview    d) mapviewer.

 

5. _____are GC rich regions in genomes.
6. a) CpG islands b) splice sites   c) restriction sites      d) promoter regions

 

 

 

II State True or False                                                                                    (5 x 1  =5)

 

6. CATH is a database of protein structures.
7. Genomic blast can be used to compare proteins.
8. Genscan is used to predict restriction sites.
9. Any number of init exons can be present in genes.
10. DIP is used in protein protein interaction studies.

 

III  Complete the following                                                                (5 x 1 = 5)

 

11. _____is the region present 100 bp upstream the genes.
12. CpG islands can be used as a clue in _________.
13. Chemical method of DNA sequencing was done by _____ and ______.
14. ______ is used for gene
15. ______ is used to identify intron exon boundaries..

 

 

IV Define the following                                                          .             (5 x  1 = 5)

 

16. What is Genome ?.
17. What are Donor sites ?.
18. What is INTR .
19. Define :Y score.
20. Explain DIP-blast.

PART B

 

Answer any Five of the following , each in about 350 words.                 (5 x 8 =40)

 

21. Write short notes on the types of exons..
22. Discuss about CpG islands and their importance.
23. Explain promoter 2.0 and its output format.
24. Give a brief note on BDGP analysis tool and its applications.
25. Discuss the role of computers in the field of biology.
26. Explain the database of drugs and metabolic pathways.
27. Discuss about electrophoresis and its applications.
28. Explain mapviewer and its applications.

PART C

 

Answer  the following  in about 1500 words.         (2 x 20 = 40)

Draw diagrams / flowcharts wherever necessary.

 

 

29.a) Explain the DNA sequencing method.

Or

1. b) Explain the Database of interacting proteins and its applications

 

30.a) Discuss the software used to predict the signal used for transfer of proteins to

their site of action.

Or

b). Discuss about Genscan and its output format and interpret the following results.

 

Gn.Ex Type S .Begin …End .Len Fr Ph I/Ac Do/T CodRg P…. Tscr..—– —- – —— —— —- — — —- —- —– —– ——  1.00 Prom +    658    697   40                              -3.65 1.01 Init +   2877   3004  128  2  2   74   37    96 0.196   2.78 1.02 Term +   8092   8218  127  1  1   67   42   102 0.105   0.27 1.03 PlyA +   8929   8934    6                               1.05

 

 

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