BIO INFORMATICS

BIO INFORMATICS Question Papers (Supple, 2007)

SET : 1

1. What is Bioinformatics? Describe its scope in modern biology? [16]

2. Write short notes on:
(a) Gapped BLAST
(b) PSI-BLAST
(c) BLAST (2) [16]

3. What is multiple sequence alignment? Describe the applications of multiple sequence alignments? [16]

4. Describe the following:
(a) Structural classifications of proteins
(b) The CATH (Class, Architecture, Topology, Homology) databases [16]

5. Explain Database searching with Smith-waterman Dynamic programming method? [16]

6. Describe about Phylogenetic tree construction by using UPGMA method? [16]

7. Define Genome? Outline the structure and composition of prokaryotic and Eukaryotic genomes? [16]

8. Write short notes on:
(a) GRAIL II
(b) ORF [16]

SET : 2

1. Describe the following:
(a) Uniform Resource Locator (URL)
(b) Role of Internet in Bioinformatics [16]

2. Write a note on Parametric sequence alignment? [16]

3. How to multiply Aligned sequences and assessing quality of alignment? [16]

4. Define Secondary databases? Give an overview of secondary databases? [16]

5. What is Block Substitution Matrices (BLOSUM)? Describe them in detail? [16]

6. Write short notes on:
(a) Star decomposition
(b) PHYLIP programs [16]

7. Define Genome? Outline the structure and composition of prokaryotic and Eukaryotic genomes? [16]

8. Write an essay on gene Prediction in Eukaryotes? [16]

SET :3

1. What are the basic Computer skills required for Bioinformatician? Write elementary commands in Linux operating system? [16]

2. Explain about different BLAST programs in detail with a neat flow charts and how are they useful? [16]

3. How to multiply Aligned sequences and assessing quality of alignment? [16]

4. Write short notes on:
(a) Tr-EMBL
(b) P-fam [16]

5. Name the Database search algorithm employed in alignment of sequences and explain in detail about any one of it? [16]

6. Discuss in detail about Character based methods in phylogenetic Analysis? [16]

7. Describe briefly about different types of Gene mapping? [16]

8. Write short notes on:
(a) GRAIL II
(b) ORF [16]

SET : 4

1. Write short notes on the following:
(a) Domain and Domain name
(b) Modem
(c) Routers
(d) FQDN [16]

2. Describe the following:
(a) Importance of GAPs and GAP penalties in sequence alignment
(b) Edit distance of two strings
(c) Dot matrix Analysis [16]

3. What is a multiple alignment and why we do it? [16]

4. Write short notes on:
(a) PDB
(b) SCOP [16]

5. What is Block Substitution Matrices (BLOSUM)? Describe them in detail? [16]

6. Describe about Phylogenetic tree construction by using UPGMA method? [16]

7. Write short notes on:
(a) Computer tools for sequencing
(b) DNA fingerprinting [16]

8. Write short notes on:
(a) GRAIL II
(b) ORF [16]
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LABELS: BIOINFORMATICS
BIO INFORMATICS Question Papers (Regular, 2007)
POSTED BY M.S.CHOWDARY AT 7:50 AM
SET : 1
1. Write short notes on the following :
a) Domain and domain name
b) Modem
c) Routers
d) FQDN
2. What types of scoring matrix is used by BLAST? Explain about different substitution matrices?
3. Explain in detail about the databases of multiple alignments?
4. Write an assay on different genome (DNA) information resource?
5. Who created BLAST and explain the type of scoring matrix used by BLAST?
6. Discuss about relationships of phylogenetic analysis to sequence alignment?
7. What are genomic MAP elements? Explain about different types of Maps?
8. What is a gene? Write the fine structure of the gene and compare the structural differences of gene between prokaryotes and eukaryotes?
SET : 2
1. What is telnet? Explain its functioning system?
2. What is meant by similarity searching? Explain in detail about sequence similarity search tools?
3. What is multiple sequence alignment? Describe the applications of multiple sequence alignments?
4. Describe the following :
a) Structural classification of proteins
b) The CATH (Class, Architecture, Topology, Homology ) databases.
5. What is Block Substitution Matrices (BLOSUM)? Describe them in detail.
6. Explain the significance of phylogenetic analysis in inferring the relationship between distantly related sequences?
7. Describe the steps involved in sequence assembly?
8. Write short notes on :
a) Contant based methods
b) Comparative methods
c) Central dogma in gene expression.
SET : 3
1. Explain the steps involved in protein prediction and modeling by using Bioinformatics?
2. What are Direct and Inverted repeats? Suggest a comparision method for knowing direct and inverted repeats and explain about it?
3. Write short notes on :
a) CLUSTAL W
b) PILEUP
4. What is meant by database similarity searches? Explain different ways of database similarity searching?
5. What is Block Substitution Matrices (BLOSUM)? Describe them in detail.
6. What are ultra metric trees and distances? Describe them in detail.
7. What are the important problems that will be encountered in sequencing and explain about them?
8. Write short notes on :
a) GRAIL II
b) ORF
SET : 4
1. What is Bioinformatics? Describe its scope in modern biology?
2. Explain about different BLAST programs in detail with a neat flow chart and how are they useful?
3. Define Multiple Alignments? Describe in detail methods employed for Multiple sequence alignment?
4. Explain about FASTA sequence database similarity searching?
5. Describe the different BLAST suits used to search DNA and protein databases.
6. Discuss in detail about character based methods in phylogenetic analysis?
7. Define gene mapping? Explain about applications of mapping?
8. Write short notes on :
c) GRAIL II
d) ORF
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LABELS: BIOINFORMATICS
BIO INFORMATICS Question Papers (Supple, 2006)
POSTED BY M.S.CHOWDARY AT 7:49 AM
SET : 1
1. Why is bioinformatics important and explain its applications in the field of biology?
2. What is a sequence alignment? Describe the significance of sequence alignment in detail and list out the types of sequence alignment?
3. Write about hidden markov models of multiple sequence alignment?
4. How can you classify sequence database? Describe about nucleotide sequence databases?
5. Who created BLAST and explain the type of scoring matrix used by BLAST?
6. Discuss about relationships of phylogenetic analysis to sequence alignment?
7. Write short notes on :
a) Computer tools for sequencing
b) DNA finger printing
8. What is a gene? Write the fine structure of the gene and compare the structural differences of gene between prokaryotes and eukaryotes?
SET : 2
1. Describe the following :
a) Uniform resource locator
b) Role of internet in bioinformatics
2. Explain about different BLAST program in detail with a neat flow charts and how are they useful?
3. Write short notes on :
a) Relationship of multiple sequence alignment to phylogenetic analysis.
b) Uses of multiple sequence alignment.
4. Write an essay on different genome (DNA) information resources?
5. Explain the importance of substitution matrices in sequence alignment?
6. Describe about phylogenetic tree construction by using UPGMA method?
7. Define genome? Outline the structure and composition of prokaryotic and eukaryotic genomes?
8. What are neural networks? How they are useful in predicting a gene structure?
SET : 3
1. What are the main objectives of bioinformatics and what does bioinformatics comprise of?
2. Describe dynamic programming algorithm in detail?
3. What is multiple sequence alignment? Describe the applications of multiple sequence alignments?
4. Write a brief notes on the following :
a) Sub division of genbank
b) Structure of a genebank record
5. What is Block Substitution Matrices (BLOSUM)? Describe them in detail.
6. Describe about phylogenetic tree construction by using UPGMA method?
7. Define genome? Outline the structure and composition of prokaryotic and eukaryotic genomes?
8. Write short notes on :
a) GRAIL II
b) ORF
SET : 4
1. What is bioinformatics? Describe its scope in modern biology?
2. Explain about computational method for aligning DNA and protein sequences?
3. Describe any one progressive method of multiple alignment?
4. Define databases? Give an overview of biological databases?
5. Name the database search algorithm employed in alignment of sequences and explain in detail about any one of it?
6. Describe the following :
a) Perfect phylogeny
b) The relationship of phylogenetic analysis and sequence alignment.
7. Write short notes on :
a) GRAIL II
b) ORF.
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LABELS: BIOINFORMATICS
BIO INFORMATICS Question Papers (Regular, 2006)
POSTED BY M.S.CHOWDARY AT 7:47 AM
SET : 1
1. What is Bioinformatics? Describe its scope in modern biology?
2. Write short note on :
a) Dot plot
b) Local alignment
3. Write short notes on :
a) Relationship of multiple sequence alignment to phylogenetic analysis
b) Uses of multiple sequence alignment
4. Explain in detail about structural databases?
5. What is Block Substitution Matrices (BLOSUM)? Describe them in detail.
6. Describe the following :
a) Perfect phylogeny
b) The relationship of phylogenetic analysis and sequence assembly?
7. Discuss in detail about the steps involved in sequence assembly?
8. Write brief account on any two of the following :
a) Codov usage
b) Intron and exons
c) Regulatory sequences and their role.
SET : 2
1. Explain the steps involved in protein prediction and modeling by using bioinformatics?
2. Explain in detail about dynamics : Programming method for sequence alignment?
3. Give the general account on different common multiple sequence alignment methods?
4. Explain about BLAST sequence database search?
5. What is Block Substitution Matrices (BLOSUM)? Describe them in detail.
6. Describe the following :
c) Perfect phylogeny
d) The relationship of phylogenetic analysis and sequence assembly?
7. Define genome? Outline the structure and composition of prokaryotic and eukaryotic genomes?
8. Write short notes on :
a) GRAIL II
b) ORF
SET : 3
1. What is Bioinformatics? Describe its scope in modern biology?
2. Explain about computational method for aligning DNA and protein sequences.
3. What is multiple sequence alignment? Describe the applications of multiple sequence alignments?
4. Describe the following :
a) Structural classification of proteins
b) The CATH (Class, Architecture, Topology, Homology ) databases.
5. What is Block Substitution Matrices (BLOSUM)? Describe them in detail.
6. Define parsimony? Write in detail how parsimony is used to infer phylogenetic relationships?
7. Write short notes on :
a) Clone map
b) STS map
8. Write short notes on :
c) GRAIL II
d) ORF
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LABELS: BIOINFORMATICS
BIO INFORMATICS Question Papers (Supple, 2005)
POSTED BY M.S.CHOWDARY AT 7:46 AM
SET : 1

1. What is HTTP? Explain about operation of HTTP? [16]

2. Explain about computational method for aligning DNA and Protein sequences?[16]

3. Define Multiple Alignment? Describe in detail about methods employed for Multiple sequence alignment? [16]

4. What is meant by Database Similarity searches? Explain different ways of Database similarity searching? [16]

5. Explain about Percent Accepted Mutation? [16]

6. Describe the following:
(a) Perfect phylogeny
(b) The relationship of Phylogenetic analysis and sequence alignment. [16]

7. Define Genome? Outline the structure and composition of prokaryotic and Eukaryotic genomes? [16]

8. What is a gene? Write the fine structure of the gene and compare the structural differences of gene between prokaryotes and eukaryotes? [16]

SET :2

1. Explain the steps involved in protein prediction and modeling by using Bioinformatics? [16]

2. Give an account of BLAST programs and how are they useful? [16]

3. Explain about Localized alignments in sequences? [16]

4. Describe the different databases available for the storage of protein information resources? [16]

5. Explain about Percent Accepted Mutation? [16]

6. Discuss about Concept of Trees in phylogenetic Analysis? [16]

7. Define Genome? Outline the structure and composition of prokaryotic and Eukaryotic genomes? [16]

8. Write short notes on:
(a) GRAIL II
(b) ORF [16]

SET :3

1. Describe the following:
(a) Uniform Resource Locator (URL)
(b) Role of Internet in Bioinformatics [16]

2. Definer Multiple sequence alignment? Describe in detail about methods employed in Multiple sequence alignment? [16]

3. Describe any one progressive method of multiple sequence alignment? [16]

4. How can you classify sequence databases? Describe about Nucleotide sequence databases? [16]

5. Explain about Pairwise database searching. [16]

6. Discus about relationships of Phylogenetic analysis to sequence alignment? [16]

7. Write an essay on sequence assembly and Gene Identification? [16]

8. Write short notes on:
(a) GRAIL II
(b) ORF [16]

SET :4
1. What is Bioinformatics? Describe its scope in modern biology? [16]

2. What type of scoring matrix is used by BLAST? Explain about different substitution matrices? [16]

3. What is multiple sequence alignment? Describe the applications of multiple se-quence alignments? [16]

4. Write in detail about DNA versus Protein searches? [16]

5. Write short notes on:
(a) BLOSUM
(b) Differentiate between PAM & BLOSUM [16]

6. Discus about relationships of Phylogenetic analysis to sequence alignment? [16]

7. What is DNA mapping? Describe its applications? [16]

8. Explain in detail about Feature based approaches to Gene Prediction? [16]