Introduction to scientific programming for MSc in Drug Discovery & Translational Biology (P02473)

? Credit Points : 10 ? SCQF Level : 11 ? Acronym : BIO-P-BIO_ISPRG

This course which is specifically designed for taught MSc students in Drug Discovery and Translational Biology, will provide through lectures and tutorial exercises a basic knowledge of computer programming. The course will give the students the ability to write simple programs to manipulate digital and text data, and to perform simple mathematical trnasformations.

? Keywords : Drug Discovery
Computer programming
FORTRAN
C
JAVA
PERL

Entry Requirements

? This course is not available to visting students.

? Pre-requisites : A basic knowledge of chemistry and mathematics.

? Co-requisites : Enrolled on the MSc in Drug Discovery & Translational Biology

? Costs : Recommended course book(s).

Subject Areas

Home subject area

Biochemistry, (School of Biological Sciences, Schedule K)

Delivery Information

? Normal year taken : Postgraduate

? Delivery Period : Semester 1 (Blocks 1-2)

? Contact Teaching Time : 2 hour(s) per week for 10 weeks

Summary of Intended Learning Outcomes

At the end of the course, the student will be able to:
take file of arbitary ordered data and reorder according to given rule, reformat lines to allow them to be read in.
write a program to solve square root of a quadratic equation (given bones to read in a, b and c) and write out result
write a program to read in a file, reformat its contents and write out the contents in new way
write a program which reads in file of gene names, descriptions and chromosome locations; provide a menu with 3 choices, print out genes with same name, print out genes with same chromosome, exit program
write a program which, given a pdb ID from the command line, will read in the pdb file, offer 5 menu choices to list atoms within a given distance, list residues within given distance, list atoms in a given residue, give average B factor within given residue and exit
write a PERL program to read in a collection of sequences and store selected facts about the sequences in a MySQL database
write a Web interface in PHP to programs from the previous examples (or provided example programs)