PLNT4610/PLNT7690 Bioinformatics - Lecture 3, part 1 of 2

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PLNT4610/PLNT7690 Bioinformatics
Lecture 3, part 1 of 2

WORKING WITH SEQUENCES

Before next class:

Tutorial: Artemis basics (Exercises 1 and 2)

Learning Checklist:

1. Be familiar with how DNA, RNA and protein sequences are represented in the common sequence file formats. Be able to explain the differences between the formats discussed, and the advantages or disadvantages of each. Be able to explain the meaning of how sequence features are represented in the GenBank Features Table.

2. Gain an understanding of how to work with sequences, based on the following concepts:

the 5' to 3' directionality of DNA and RNA
the orientation of a DNA and RNA ie. original versus inverse complement
the special problems associated with circular sequences

3. Learn how to use the BioLegato interface to manipulate sequences and run sequence programs.

A. Sequence Files
B. Tutorial: Basic shell scripting for sequences
C. Tutorial: Displaying and manipulating sequences in BioLegato
D. BioLegato Overview

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PLNT4610/PLNT7690 Bioinformatics
Lecture 3, part 1 of 2

September 19, 24, 2024

WORKING WITH SEQUENCES