B.E. (Information Technology) BIOINFORMATICS
(2008 Pattern) (Elective – IV) (Sem. -II)
Time :3 Hours] [Max. Marks :100
Instructions to the candidates:-
1) Answer QI or Q2, Q3 or Q4, and Q5 or Q6 from Section -1 and Q7 or Q8, Q9 or QIO, and QII or Q12 from Section – II.
2) Answer 3 questions from Section -1 and 3 questions from Section – II.
3) Answers to the two sections should be written in separate answer books.
4) Neat diagrams must be drawn wherever necessary.
5) Pigures to the right indicate full marks.
6) Assume suitable data, if necessary.
SECTION – I
QIA a) Define bioinformatics. Explain bioinformatic applications related to the following areas : 
i) Phylogenetic Analysis.
ii) Genome Annotation.
iv) Drug Discovery.
b) Classify and explain major databases in bioinformatics giving examples of each database. 
Q2) a) Explain central dogma of molecular biology with neat diagram. Explain how is it an information science. 
b) State and explain various data retrieval tools in bioinformatics. Explain the steps for data mining and knowledge discovery of biological databases. 
Q3) a) What is structure visualization? Explain the various rendering tools in structure visualization. 
b) Explain microarray spotting process flow in detail. How is microarray result analysis done? 
Q4) a) Explain in detail the various methods of data mining for extracting patterns from data. 
b) Differentiate between clustering and classification. Explain hierarchical and k-means clustering in brief. 
QS) a) Explain the basic machine learning process with neat diagram. Describe following machine learning processes in brief : 
i) Neural networks.
ii) Decision Trees.
b) What is text mining? Explain NLP approach of text mining in detail, giving significance of each stage. 
Q6) a) Explain major steps in pattern recognition and discovery process. 
b) Explain following methods of computational sequence alignment : 
i) Dot Matrix Analysis.
ii) Word – based Method.
SECTION – II
Q7) a) Explain modeling and simulation process alongwith the components involved in detail. 
b) Differentiate between Ab-Initio and Heuristic methods of protein structure prediction. Explain the general ab-initio prediction process in detail with neat diagram. 
Q8) a) Draw the collaboration – communication model. Explain collaboration and communication hierarchy in detail with neat diagram and appropriate examples. 
b) Explain synchronous and asynchronous collaboration. 
Explain similarities and differences between BLAST and FASTA tools for sequence alignment. 
Explain FASTA algorithm in detail with recommended steps for similarity searching. 
Explain BLAST algorithm. State the major refirements included in gapped BLAST. 
Explain the significance of E@ ) value with example. What is filtering in BLAST? 
Discuss various factors responsible for degradation in the ecosystem. 
Explain how interchange and transformation of pollutants take place in atmosphere, hydrosphere and lithosphere. 
Define genetic engineering. Explain any two techniques of genetic engineering in detail. 
Write short notes on : 
i) Significance of Biotechnology.
ii) Applications of genetic engineering.