Aim of this module
The volume of data being generated by new functional genomics and NGS methodologies is unprecedented in medicine. The challenges of being able to capture and integrate this data effectively such that it can be used effectively require solutions beyond those that have typically been used in clinical medicine. The trainee will be introduced to modern computational methodologies for handling and integrating large data. This will involve them in developing a good understanding of data description standards (through ontologies) and data federation methodologies. Workflow systems will be introduced as tools for industrial-scale bioinformatics analyses, as well as a discussion of cloud-based computer solutions for extending the compute resource available within the NHS. A strong focus will be placed on the ethical and governance issues raised by using such technologies within an NHS setting. In this module trainees will be expected to use computational methodologies for handling and integrating large data in accordance with data description standards (through ontologies) and data federation standards. They will be expected to use and design dynamic systems as tools for industrial-scale bioinformatics analyses within the ethical and governance issues raised by using such technologies within an NHS setting from the perspective of the patient, the clinical department and the organisation.
|Number||Work-based learning outcome||Title||Knowledge|
Identify a task capable of automated workflow analysis.
Carry out a feasibility study, discussing user requirements, and develop a detailed requirements specification with key stakeholders, and validate and gain authorisation.
Perform, evaluate and present an options appraisal of technology and resource options.
Develop, test and evaluate the workflow and perform user acceptance procedures.
Deploy the workflow, including maintenance and upgrading, ensuring compliance with quality assurance procedures, including version control.
Finalise workflow documentation and file in accordance with local standard operating procedures.
Train workflow users and assess the effectiveness of the training.
|You must complete|
|2 Case-based discussion(s)|
|2 of the following DOPS / OCEs|
|Demonstrate the data backup procedure in accordance with departmental protocols||DOPS|
|Demonstrate techniques checksum etc for testing the integrity of data transfer||DOPS|
|Organise and oversee deployment of a software update.||DOPS|
|Create a secure backup of an NGS dataset ensuring data integrity||DOPS|
|Organise and oversee deployment of software.||DOPS|
|Present a strategy for an identifiable clinical bioinformatics requirement to a team of professionals||OCE|
The academic parts of this module will be detailed and communicated to you by your university. Please contact them if you have questions regarding this module and its assessments. The module titles in your MSc may not be exactly identical to the work-based modules shown in the e-portfolio. Your modules will be aligned, however, to ensure that your academic and work-based learning are complimentary.
Functional genomics and genomics data sets