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EMERALD Sponsored Data Transformation Ontology Workshop

5th-9th November, 2007 @ EBI, Hinxton, Cambridge, UK

 

Overview

In November 2007, EBI will be hosting a workshop to discuss the various approaches used in the transformation of biomedical data with a view to furthering work being undertaken in collaboration with the Ontology for Biomedical Investigations (OBI). Specifically the areas will include:

• Algorithmic approaches
• Tools and software
• Statistical methods
• Procedural approaches

Workshop Minutes

Minutes from the workshop can now be found online here

Agenda

Current agenda is as follows (subject to change):

Mon 5th November:
9:30 Welcome by Helen Parkinson/James Malone
10:00 Current status of OBI branch - James Malone
10:30 -11:00 Morning Tea
11:00-12:00 Current OBI data transformation branch work; refining the ontology
12:00-13:00 Lunch
13:00-14:30 Role discussion + continue work on refining the OBI branch ontology
14:30-15:00 Afternoon Tea
15:00-16:00 Continue work on refining the OBI branch ontology
15:00-17:00 External Speaker: Discussion with DANIEL RUBIN on Software Ontology (via Skype at 16:00) Some information on the Software Ontology can be found here

17:30-20:30 Monday 5th November is Guy Fawkes Night in the UK (not public holiday).There is a free fireworks display here at the Genome Campus with "food, mulled wine and a spectacular fireworks show on campus"
See here for more info on Guy Fawkes Night

There is also a larger even in the city centre at Midsummer Common, Cambridge from 7:30 this evening. Information on the event

Tue 6th November:
9:00-10:30 EM: The 'normalization' class
10:30 -11:00 Morning Tea
11:00-12:00 The use of 'Role', 'Function' and 'Quality' within data transformation concepts
12:00-13:00 Lunch
13:00-15:30 Continue work on identifying Roles
15:30-16:00 Afternoon Tea
16:00-17:00 Review of data transformation branch (filtering + dimensionality reduction)

Wed 7th November:
9:00-10:30 Continue review of data transformation branch (filtering + dimensionality reduction)
10:30 -11:00 Morning Tea
11:00-11:15 Cristian Cocos on Roles and BFO
11:15-12:00 Review of outstanding terms submitted to branch for inclusion
12:00-13:00 Lunch
13:00-14:30 How do we evaluate our ontology?
14:30-15:30 Use of Metadata in Data Transformation branch
15:30-16:00 Afternoon Tea
16:00-17:00 OBI Developers Call via Centra

Thu 8th November:
9:00-10:30 How to evaluate the ontology: a worked example
10:30 -11:00 Morning Tea
11:00-12:00 Discussion on relevant standards and bodies: publicising OBI as a standard
12:00-13:00 Lunch
13:00-14:30 Continue any outstanding issues
15:30-16:00 Afternoon Tea
16:00-17:00 Future work for branch and review of action items

Fri 9th November:
9:00-10:30 Recap of workshop and future work
10:30 -11:00 Morning Tea
11:00-12:00 Continute recap and end at 12:00

Attendance Information
Attendee Funding Mechanism

There is limited funding available for those members invited to attend which will support the cost of:

• Flights
• Airport transfers by public transport
• Accommodation in the UK
• Partial meal allowance (this will be calculated based on the remaining budget after total cost of flights and accommodation is accounted for)

Note: Those eligible will be required to retain receipts for later reimbursement.

Accommodation

Accommodation will be reserved at the Travelodge Cambridge Central (link below), however, attendees will need to pay the bill on check-out and claim this back - details of how to claim back expenses will be made available soon.
http://www.travelodge.co.uk/find_a_hotel/hotel.php?hotel_id=255

Contact or Helen Parkinson with any queries.

Internet Access

There will be wi-fi accounts for everyone that is able to connect. There may also be limited physical wired connections in the meeting room.

Travel to EBI During Workshop

We have arranged for transport to pick you up from the Travelodge Cambridge each morning of the workshop and take you to EBI and to drop you off on the evening (except for Friday). Please be in reception for 9:00am for collection (9:30 on monday morning).

Lunch at EBI

There are two canteens at EBI which will be pointed out to you. We are arranging for a lunch voucher for each of the days of the workshop which can be used to pay for your lunch. The vouchers will be handed out on Monday.

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