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AUTHORS

8:30

8:50

Introduction

Paper Session 1

8:50

9:15

Mining Protein-Protein Interactions from GeneRIFs with OpenDMAP

A.D. Fox, W.A. Baumgartner, H.L. Johnson, L.E. Hunter, D.K. Slonim

9:15

9:40

Combining Semantic Relations and DNA Microarray Data for Novel Hypotheses Generation

D. Hristovski, A. Kastrin, B. Peterlin, T.C. Rindflesch

9:40

9:55

Learning from Positives and Unlabeled Document Retrieval for Curating Bacterial Protein-Protein Interactions

H. Liu, G. Xu, M. Torii, Z. Hu and J. Goll

9:55

10:15

Ontology-based Gene/Protein Name Normalization - A Feasibility Study

H. Liu, M. Torii, Z. Hu

10:15-10:45  Coffee Break

10:45

11:35

Invited Talk:    Reflect: An Augmented Browsing System for Life Scientists

Seán I. O' Donoghue

EMBL, Heidelberg

Paper Session 2

11:40

12:05

Moara Project: A Flexible and Trainable Java Library for the Gene/Protein Recognition and Normalization Tasks

M.L. Neves, J.M. Carazo and A. Pascual-Montano

12:05

12:30

Combining Syntactic and Ontological Knowledge to Extract Biologically Relevant Relations from Scientific Papers

A. Lourenço, H. Costa, S. Carneiro, R. Carreira, M. Rocha, E. Ferreira, I. Rocha

12:30-13:30 Lunch

Paper Session 3

13:30

13:55

Toward Computer-Assisted Text Curation : Classification is Easy (Choosing Training Data can be Hard¡K)

R. Denroche, R. Madupu, S. Yooseph, G. Sutton and H. Shatkay

13:55

14:20

 Enhancing GO-Graph-based Multi-Label Classification Using Semantic-Rich GO Terms

B. Jin and X. Lu

14:30-15:30  Panel : Ontology-based annotation tools

Panelists:

Barend Mons,U. of Rotterdam and Leiden University, Concept Web Alliance; 

Norman Morrison,U of Manchester;     Nigam Shah, Stanford;     Michael Schroeder, TU  Dresden

15:30-16:00 Coffee Break

16:00

17:00

Shared tasks reports

Larry Hunter, BioNLP'09 ; Florian Leitner, BioCreative Meta-Server, BioCreative II.5;   Lynette Hirschman, Text Mining for BioCuration

17:00

18:00

Discussion