Sept 6-12

Return to Bioinformatics

Summary for Week 2

In Chapter 5 of Beginning Perl for Bioinformatics "Motifs and Loops", we continued to learn about the basics of Perl language. This chapter explains how to: search for motifs in DNA or protein, interact with users at the keyboard, write data to files, use loops, use basic regular expressions, take different actions depending on the outcome of conditional tests, examine sequence data in detail by operating on strings and arrays.

In addition, chapter 2 of Bioinformatics for Dummies, "How Most People Use Bioinformatics" gave us an overview on how to:

• -use PubMed
• -retrieve specific protein and DNA sequences
• -run a sequence/database comparison with BLAST
• -perform multiple sequence alignment with ClustlW

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HOMEWORK

Erika:

• Exercise 5.1
• Exercise 5.2
• Exercise 5.3
• Exercise 5.4
• Exercise 5.5
• Exercise 5.8
• Exercise 5.10

HOMEWORK

Damian:

• Exercise 5.1D
• Exercise 5.2D
• Exercise 5.3D
• Exercise 5.4D
• Exercise 5.5D
• Exercise 5.8D
• Exercise 5.10D