[BiO BB] 3rd Integrative Bioinformatics Workshop - REGISTRATION CLOSES TODAY!!

[rainer winnenburg (RRes-Roth)]

*** FINAL CALL FOR PARTICIPATION *** 
*** REGISTER FOR WORKSHOP AND BOOK ACCOMMODATION NOW! *** 
*** REGISTRATION CLOSES TODAY *** 

3rd Integrative Bioinformatics Workshop 
September 4-6, 2006 
Rothamsted Research, Harpenden, Hertfordshire, United Kingdom http://www.rothamsted.bbsrc.ac.uk/bab/conf/ibiof/ 

IMPORTANT DATES (please note that the dates have been revised!!!) 
August 14: Registration for participation deadline 
August 21: Poster submission deadline 

INVITED SPEAKERS 
Dr Steve Gardner, Chief Technology Officer, Biowisdom, UK 
Semantic Integration, SRS and the Meaning of Life (Sciences) Dr Gunaretnam Rajagopal, Deputy Director, Bioinformatics Institute, Singapore 
BioComputing at Biopolis - Opening New Frontiers at the Interface of Computing, Biology and Medicine Dr Tom Oinn, Taverna project leader, EBI, UK 
Services, Semantics and Workflows in eScience 
Prof Pedro Mendes, Virginia Bioinformatics Institute, USA 
Top-down Modeling of Biochemical Networks, a Grand Challenge of Systems Biology 

PROGRAMME 
Monday 4th September 2006 
11:30 Registration desk opens 
12:30 Lunch (buffet style) 
13:10 Welcome followed by some administrivia 
Session 1 Database Integration and Integrative Databases 
13:20 keynote Semantic Integration, SRS and the Meaning of Life (Sciences) 
Steve Gardner (Biowisdom, UK) 
14:00 CoryneRegNet 2: An Integrative Bioinformatics Approach for Reconstruction 
and Comparison of Transcriptional Regulatory Networks in Prokaryotes 
Baumbach, J; Brinkrolf, K; Wittkop, T; Tauch, A; Rahmann, S 
14:25 Analysing Microarray Data using the Multi-functional Immune Ontologiser 
Khalid, S; Fraser, K; Khan, M; Wang, P; Liu, X; Li, S 
14:50 The BioRS(TM) Integration and Retrieval System: An open system for distributed 
data integration 
Kaps, A; Dyshlevoi, K; Heumann, K; Jost, R; Kontodinas, I; Wolff, M; Hani, J 
15:15 Integration of Protein and Protein-Protein Interaction Data: Feasibility 
Report using Microsoft .NET 
Straßer, W; Siegl, D; Önder, K; Bauer, J 
15:40 Coffee break 
16:00 BN++ - A Biological Information System 
Küntzer, J; Blum, T; Gerasch, A; Backes, C; Hildebrandt, A; Kaufmann, M; Kohlbacher, O; 
Lenhof, HP 
16:25 MILAN - A medical information-system linking agents to metabolic networks 
Prins, B; Hofestädt, R 
16:50 Data Cleaning and Semantic Improvement in Biological Databases 
Apiletti, D; Bruno, G; Ficarra, E; Baralis, E 
17:15 Drinks and Poster Session 
18:45 Coach to Holiday Inn Hotel 

Tuesday 5th September 2006 
09:30 Coach from Holiday Inn Hotel 
Session 2 Integrative Systems Biology - Modelling and Simulation 
10:00 keynote Top-down Modeling of Biochemical Networks, a Grand Challenge of Systems 
Biology 
Pedro Mendes (Virginia Bioinformatics Institute, USA) 
10:40 BASIS: an internet resource for network modelling 
Gillespie, CS; Wilkinson, DJ; Shanley, DP; Proctor, CJ; Boys, RJ; Kirkwood, TBL 
11:05 Coffee break 
11:20 The implications for Bioinformatics of integration across physical scales 
Hodgman, TC; Ugartechea-Chirino, Y; Tansley, G; Dryden, I 
11:45 A Graphical Notation to Describe the Logical Interactions of Biological Pathways 
Moodie, SL; Sorokin, A; Goryanin, I; Ghazal, P 
12:10 Exact and Approximate Stochastic Simulations of the MAPK Pathway and Comparisons 
of Simulations' Results 
Purutcuoglu, V; Wit, E 
12:35 Lunch (buffet style) 
Session 3 Integrative Systems Biology - Networks 
13:30 keynote BioComputing at Biopolis - Opening New Frontiers at the Interface of Computing, 
Biology and Medicine 
Gunaretnam Rajagopal (Bioinformatics Institute, Singapore) 
14:10 Statistical Embedding in Complex Biosystems 
Capobianco, E 
14:35 An assessment of machine and statistical learning approaches to inferring 
networks of protein-protein interactions 
Azuaje, F 
14:50 Multi-model inference of network properties from incomplete data 
Stumpf, MPH; Thorne, T 
15:15 Coffee break 
Session 4 Data Analysis and Interpretation - Transcriptomics 
15:45 Co-expressed gene groups analysis (CGGA): An automatic tool for the 
interpretation of microarray experiments 
Martinez, R; Pasquier, N; Collard, M; Lopez, L; Pasquier, C 
16:10 Combining biomedical knowledge and transcriptomic data to extract new knowledge 
on genes 
Guérin, E; Marquet, G; Chabalier, J; Troadec, M-B; Guguen-Guillouzo, C; Loréal, O; 
Burgun, A; Moussouni, F 
16:35 Inference of Gene Coexpression Networks by Integrative Analysis across 
Microarray Experiments 
Elo, LL; Lahesmaa, R; Aittokallio, T 
17:00 Modelling Microarray Data: Interpreting and communicating the biological 
results 
Pittelkow, YE; Wilson, SR 
17:25 Targeted Projection Pursuit Tool for Gene Expression Visualisation 
Faith, J; Brockway, M 
17:50 Poster session and Bar opens 
19:00 Coach to workshop dinner and Holiday Inn Hotel 
22:00 Coach from workshop dinner to Holiday Inn Hotel 
19:30 Conference dinner 

Wednesday 6th September 2006 
09:30 Coach from Holiday Inn Hotel 
Session 5 Data Analysis and Interpretation 
10:00 keynote Services, Semantics and Workflows in eScience 
Tom Oinn (European Bioinformatics Institute, UK) 
10:40 Metabolite profiles as a reflection of physiological status - a methodological 
validation 
Steinfath, M; Repsilber, D; Hische, M; Schauer, N; Fernie, A; Selbig, J 
11:05 A First Step towards Learning which uORFs Regulate Gene Expression 
Selpi; Bryant, CH; Kemp, GJL; Cvijovic, M 
11:30 Coffee break 
11:50 Prediction of transcription factor binding to DNA using rule induction methods 
Huss, M; Nordström, K 
12:15 Functional diversity within protein superfamilies 
Casbon, J; Saqi, M 
12:40 Closing remarks 
12:50 Lunch (buffet style) 
Depart 

ORGANISING COMMITTEE 
Julio Collado-Vides UNAM, Mexico 
Ralf Hofestädt Bielefeld University, Germany 
Paul Kersey EBI, UK 
Jacob Koehler RRes, UK 
Chris Rawlings RRes, UK 
Uwe Scholz IPK Gatersleben, Germany 
Paul Verrier RRes, UK 

CONTACT 
Karen Morris, BAB Division, Rothamsted Research, West Common, Harpenden, Herts. AL5 2JQ, UK karen.morris at bbsrc.ac.uk 
tel: 01582 763133 ext 2813 
fax: 01582 467907