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BIOT9006 - Bioinformatics 2

Title:Bioinformatics 2
Long Title:Bioinformatics 2
Module Code:BIOT9006
Credits: 5
NFQ Level:Expert
Field of Study: Biotechnology
Valid From: Semester 1 - 2011/12 ( September 2011 )
Module Delivered in 1 programme(s)
Module Coordinator: BRENDAN O CONNELL
Module Author: ROY SLEATOR
Module Description: This module introduces students to the application of opensource software for bioinformatics projects.
Learning Outcomes
On successful completion of this module the learner will be able to:
LO1 Evaluate bioinformatic tools and online resources available for DNA sequence analysis.
LO2 Critically assess the available open source programmes for protein structure and function prediction.
LO3 Design appropriate work flows for annotation of large amounts of sequence data.
LO4 Demonstrate an ability to interpret complex sequence analysis data and report the findings in publishable format.
Pre-requisite learning
Module Recommendations
This is prior learning (or a practical skill) that is strongly recommended before enrolment in this module. You may enrol in this module if you have not acquired the recommended learning but you will have considerable difficulty in passing (i.e. achieving the learning outcomes of) the module. While the prior learning is expressed as named CIT module(s) it also allows for learning (in another module or modules) which is equivalent to the learning specified in the named module(s).
No recommendations listed
Incompatible Modules
These are modules which have learning outcomes that are too similar to the learning outcomes of this module. You may not earn additional credit for the same learning and therefore you may not enrol in this module if you have successfully completed any modules in the incompatible list.
No incompatible modules listed
Co-requisite Modules
No Co-requisite modules listed

This is prior learning (or a practical skill) that is mandatory before enrolment in this module is allowed. You may not enrol on this module if you have not acquired the learning specified in this section.

No requirements listed
No Co Requisites listed

Module Content & Assessment

Indicative Content
Sequence databases
A detailed analysis of publically available primary and secondary DNA and protein databases.
Database searching
A detailed analysis of the online sequence retrieval systems BLAST, PSI BLAST and Fasta3.
Protein structure and Function analysis
A detailed analysis of secondary structure prediction programmes such as Preditor, PredictProtein, etc.
Sequence and structural motif analysis
A detailed analysis of the pattern and profile search tools facilitating protein structure and function prediction.
Assessment Breakdown%
Course Work100.00%
Course Work
Assessment Type Assessment Description Outcome addressed % of total Assessment Date
Performance Evaluation Demonstrate an ability to access and used appropriate open source software to carry out DNA and protein sequence analysis and write a detailed report summarising the findings in publishable format. 1,2,3,4 100.0 Every Week
No End of Module Formal Examination
Reassessment Requirement
Coursework Only
This module is reassessed solely on the basis of re-submitted coursework. There is no repeat written examination.

The institute reserves the right to alter the nature and timings of assessment


Module Workload

Workload: Full Time
Workload Type Workload Description Hours Frequency Average Weekly Learner Workload
Tutorial theoretical background to in silico based instruction 1.0 Every Week 1.00
Lecturer-Supervised Learning (Contact) in silico problem based instruction 2.0 Every Week 2.00
Independent Learning eportforio report generation 4.0 Every Week 4.00
Total Hours 7.00
Total Weekly Learner Workload 7.00
Total Weekly Contact Hours 3.00
This module has no Part Time workload.

Module Resources

Recommended Book Resources
  • David R. Westhead, J. Howard Parish and Richard M. Twyman 2002, Bioinformatics, BIOS Oxford [ISBN: 1859962726]
This module does not have any article/paper resources
This module does not have any other resources

Module Delivered in

Programme Code Programme Semester Delivery
CR_SCMPB_9 Master of Science in Computational Biology 2 Elective

Cork Institute of Technology
Rossa Avenue, Bishopstown, Cork

Tel: 021-4326100     Fax: 021-4545343
Email: help@cit.edu.ie