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Presentations by group members at external events

We regularly present our work at seminars, specific meetings, and national and international conferences.

e-Science Research at Edinburgh and Glasgow

Presentation Type: 
talk

This presentation's focus is on the computer science research performed at the National e-Science Centre as part of the University of Edinburg and the University of Glasgow. Another submission reports on the community support offered by the National e-Science Centre.

Date and time: 
Monday, 7 December, 2009 - 09:30
Location: 
UK e-Science All Hands Meeting 2009, Oxford, UK
Projects: 

Exploiting and Providing for Research Data

Speaker(s): 
Presentation Type: 
talk

This paper analyses strategies for research data with a particular emphasis on meeting researchers’ requirements. It identifies a need for innovation, categorises classes of research data and analyses the commonalities and differences in the provisions for researchers in each category. This analysis will identify research, investment and policy opportunities that should economically improve researcher satisfaction and productivity. The paper is being developed incrementally.

Date and time: 
Tuesday, 24 November, 2009 - 11:30
Location: 
UK e-Science All Hands Meeting 2009, Oxford, UK
Research topics: 

Correcting for intra-experiment technical variation in the Illumina BeadArray microarray platform

Speaker(s): 
Presentation Type: 
talk

Microarray technology is a popular means of producing whole genome transcriptional profiles, however high cost and scarcity of mRNA has led many studies to be conducted based on the analysis of single samples. We exploit the design of the Illumina platform, specifically multiple arrays on each chip, to evaluate intra- experiment technical variation using repeated hybridisations of universal human reference RNA (UHRR) and duplicate hybridisations of primary breast tumour samples from a clinical study.

Date and time: 
Tuesday, 10 November, 2009 - 09:00
Location: 
Edinburgh Cancer Research Centre

e-Science Research

Speaker(s): 
Presentation Type: 
invited

We explain how e-Science is essential to providing the context in terms of methods, tools and infrastructure for the development of a virtual fly brain. We show examples of steering computational processes, managing knowledge in the spatial context of an organism and formulation of models in developmental biology.

Date and time: 
Monday, 21 September, 2009 - 14:00
Location: 
Fly Brain Behaviour Workshop, Oxford, UK
Projects: 

Rapid: giving computational science a friendly face

Speaker(s): 
Presentation Type: 
invited

Rapid is a unique approach to quickly designing and delivering web portal interfaces for applications that require large amounts of computing resources or that need to run on specific servers. We will demonstrate the success of Rapid in a number of projects across a wide range of disciplines: brain imaging, chemistry, microscopy, engineering and seismology.

Date and time: 
Wednesday, 16 September, 2009 - 14:30
Location: 
Rm 5215, James Clerk Maxwell Building, Kings Buildings
Projects: 

Rapid Development of Computational Science Portals

Speaker(s): 
Presentation Type: 
talk

Motivation: Scientific web portals are seen as the way forward to improve upon the slow uptake in use of utility computing infrastructure and high-performance computing facilities. Currently, two types of portals exist: general-purpose portals and domain-specific portals. The first type closely resembles the underlying technical infrastructure of compute-job submission systems, thereby providing little appeal to a wide range of domain specialists. The second type is tailored to the application specifications and their end-users' requirements.

Date and time: 
Monday, 14 September, 2009 - 11:10
Location: 
IWPLS’09 International Workshop on Portals for Life Sciences, e-Science Institute, Edinburgh, UK
Projects: 

Rapid Tutorial at Advanced Distributed Services Summer School

Speaker(s): 
Presentation Type: 
tutorial

Tutorial on how to create a basic portlet with Rapid, which includes:

  • installation of required software
  • authentication to data and compute resources through username and password
  • transportation of data before and results after computation
  • use of rich user interface elements, such as a file browser and job monitoring
  • submitting the job to another computer
Date and time: 
Thursday, 10 September, 2009 - 09:00
Location: 
Advanced Distributed Services Summer School 2009, Coseners House, near Oxford
Projects: 

Automating Gene Annotation Expression for Mouse Embryo

Speaker(s): 
Presentation Type: 
talk

It is of high biomedical interest to identify gene interactions and networks that are associated with developmental and physiological functions in the mouse embryo. There are now large datasets with both spatial and ontological annotation of the spatio-temporal patterns of gene-expression that provide a powerful resource to discover potential mechanisms of embryo organisation. Ontological annotation of gene expression consists of labelling images with terms from the anatomy ontology for mouse development. Current annotation is made manually by domain experts.

Date and time: 
Monday, 17 August, 2009 - 14:00
Location: 
The 6th International Conference on Advanced Data Mining and Applications (ADMA2009), Beijing China
Projects: 

Next Generation Embryology

Speaker(s): 
Presentation Type: 
invited

3D developmental atlases are used in research for capture, collation and analysis of spatio-temporal data such as in situ gene-expression. The most advanced systems are based on a temporal series of 3D models. Examples are the EADHB human embryo atlas in Newcastle and the e-MouseAtlas in Edinburgh. Here we propose to use the 3D spatio-temporal frameworks in conjunction with a repository to deliver research and educational material directly in the context of the developing embryo.

Date and time: 
Monday, 13 July, 2009 - 13:30
Location: 
DReSNet Workshop on Repositories and Biological/Medical Applications, Institute of Health Sciences, Manchester, UK
JISC: 

Next Generation Embryology

Speaker(s): 
Presentation Type: 
talk

We introduce the Next Generation Embryology project: Next Generation in two ways. First, because its aim is to revolutionise the way the next generation of developmental biologists are educated. Where instead of relying on plastic models and diagrams in books, the idea is to use a digital library that is indexed using virtual 3D models of mouse and human embryos.

Date and time: 
Wednesday, 8 July, 2009 - 09:00
Location: 
JISC Information Environment and Virtual Research Environment projects start-up meeting, Leicester, UK
JISC: 

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