Chapter 9
Introduction to Bioinformatics
Exercises
1. Name the two modalities of analysis following sequencing.
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2. Name any three major types of variants.
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3. What are disease-specific variants termed?
(a) somatic
(b) germline
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4. Which is the preferred tool for transcriptome assembly, in the de novo and genome-guided modalities?
(a) Tophat2
(b) Trinity
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5. What is the difference between BLAT and BLAST?
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6. What came first? Structural Bioinformatics or Genome informatics?
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7. Name any two of the major classes of biological macromolecules.
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8. DNA sequences can be represented by which of the following data format?
(a) FASTQ
(b) FASTA
(c) AB1
(d) All of the above
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9. Can a phylogeny be produced dbhjirectly from a multi-fasta file? Justify your answer.
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10. Which tool can help you visualise variants in a circular manner?
(a) UCSC Genome Browser
(b) CIRCOS
(c) IGV
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11. Which of the following approaches can help one in arriving at a comprehensive understanding of the biology of an organism?
(a) Single assay across multiple individuals.
(b) Multiple orthogonal assays across fewer individuals.
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12. Why do we need to sequence nucleic acids? What can one gain by understanding the sequence of nucleic acide?
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