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Faculty of Science Handbook, Session 2017/2018

appointed Co-ordinator of the Course, by the 14th week of the submission of new entries. Besides that, it also
the 2nd Semester. Texts of the thesis is suggested to be introduces the scripting languages commonly used in
between 10,000-20,000 words (excluding tables, Bioinformatics such as Perl, Python and Java. The libraries
bibliography, appendices, etc). and toolkits relating to the scripting languages will be also
introduced such BioPerl, Biopython and BioJava. Various
Assessment Methods: problems related to Bioinformatics are considered to be
Continuous Assessment 100% solved using one of the scripting programming languages.

Medium of Instruction: Assessment Methods:
English Continuous Assessment: 60%
Final Examination: 40%
Soft Skills:
CS3, CT3, LL2, EM2 Medium of Instruction:
English

SIV 3002 INDUSTRIAL TRAINING IN Soft Skills:
BIOINFORMATICS CS3, CT3, TS2
Students will be placed at government hospitals, other Main References:
relevant government or private agencies of their choice, 1. Keith Bradnam and Ian Korf (2012). UNIX and Perl to the
which have agreed to host them. Students will be exposed Rescue: A Field Guide for the Life Sciences. Cambridge
to everyday working activities as instructed by their University Press
supervisors at the place of work. At the end of the training, 2. Brian D foy, Randal L. Schwartz and Tom Phoenix
the students have to submit a report for the training (2011). Learning Perl. Sixth Edition. O'Reilly Media
experience; the employer submits a separate report about 3. Mitchell L Model (2010). Bioinformatics Programming
the student’s performance throughout the duration of the Using Python. O’Reilly Media.
training.

Assessment Methods: SIV 3005 BIOMOLECULAR MODELLING
Continuous Assessment: 100%
This course covers the following topics: The concepts of
Medium of Instruction: molecular viewer and protein databases; The structure of
English biomolecules especially proteins; Protein structure
determination and prediction; Applications of biomolecular
Soft Skills: modeling in drugs and vaccine development and design.
CS3, CT3, TS2, EM2
Assessment Methods:
Continuous Assessment: 40%
SIV 3003 ANALYSIS OF MOLECULAR SEQUENCE Final Examination: 60%
This course emphasizes the basic understanding and Medium of Instruction:
knowledge required to analyse different types of molecular English
sequences. In practice, students will be introduced to
databases, methods of searching and matching, Soft Skills:
exploration of molecular information using predictive CT3, LL2
methods, and molecular phylogenetics for both nucleic
acids and protein sequences. Main References:
Assessment Methods: 1. Zvelebil M. & Baum J. O. (2008). Understanding
Continuous Assessment: 40% Bioinformatics. Garland Science, USA.
Final Examination: 60% 2. Stryer L. (2015). Biochemistry. Freeman and Co., NY.
3. Leach, A.R. (2010). Molecular Modelling- Principles and
Medium of Instruction: Applications. Addison Wesley Longman.
English

Soft Skills: SIV 3006 GENOMICS
CT3, TS2
This course covers the following topics: Organismic
Main References: genomes; Genome anatomy, mapping, evolution, analysis
1. Tore S. (2012). Genomics and Bioinformatics: An and rearrangements; Genome databases; Genome and
Introduction to Programming Tools for Life Scientists. transcriptome sequencing technology.
Cambridge University Press.
2. Ziheng Yang (2014). Molecular Evolution: A Statistical Assessment Methods:
Approach. Oxford University Press. Continuous Assessment: 30%
3. Micheal Agostino (2012). Practical Bioinformatics. Final Examination: 70%
Garland Science.
Medium of Instruction:
English
SIV 3004 PROGRAMMING IN BIOINFORMATICS
Soft Skills:
This course aims to provide specific knowledge required for CS3, CT3,
bioinformatics students to learn advanced aspects in
bioinformatics programming. It covers the techniques used Main References:
for bioinformatics programming; and instruction on the 1. Bruce R. Korf and Mira B. Irons (2013). Human Genetics
techniques and the use of tools for accessing, searching and Genomics.
and retrieving information from biological databases and 2. Nancy Craig, Rachel Green, Carol Greider and Gisela

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