Sikkim-Manipal University of Health Medical and Technological Sciences (SMUHMTS) 2009 M.Sc Bio Informatics BI0030-BIOLOGICAL DATABASES & SEQUENCE ANALYSIS-Assignment s for fall session - Question

BI 0030 – 01
BIOLOGICAL DATABASES & SEQUENCE ANALYSIS
(Book ID: B0829)
Marks 60

Guidelines:
learn the ques. provided beneath and ans the identical.
I. Write a short note on the subsequent 5 marks every
a) Flat files b) ProDom c) SCOP
d) BodyMap e) Dot Plots f) Mitochondrial proteome database
II. ans the subsequent 10 marks every
1. What is DBMS? define the functions of DBMS. Add a brief note on DBMS Architecture.
2. Write an account on Needleman-Wunsch algorithm for global alignment.
III. Construct a phylogenetic tree (Tree kind Neighbor joining (nj)) using subsequent sequences 10 Marks
Sequence ID one :- AB212650
Sequence ID two :- GG695903
Sequence ID three :- GQ365688
Hint: Visit website http://www.ncbi.nlm.nih.gov/ for sequence info.
Visit website http://www.ebi.ac.uk/Tools/clustalw2/index.html for ClustalW
Note: a. Sequence info must be in FASTA format.
BI 0030 – 02
BIOLOGICAL DATABASES & SEQUENCE ANALYSIS
(Book ID: B0829)
Marks 60

Guidelines:
learn the ques. provided beneath and ans the identical.
ans the subsequent
1. What is dynamic programming? discuss the steps involved in dynamic programming.
10 Marks
2. Carry out the Multiple sequence alignment and construct the tree of the subsequent H1N1 flu viral sequences published from different countries. 15 Marks
a) CY 0039527 & CY 0039528 from Netherlands,
b) CY 0039893 & CY 0039894 from USA
c) CY 0039986 & CY 0039987 from Thailand
d) CY 0040870 & CY 0040871 from Norway
Hint: Go to NCBI Website?Influenza Virus Resource (H1N1 flu resource) ?Database

4. Write a short note on the following five Marks every
a) PHYLIP b) EMP Database
c) ArkDB d) PRINTS
e) Scoring matrices f) Object-Oriented Model g) Pair-wise alignment

Earning:   Approval pending.