[Apologies for cross-posting]
*** CALL FOR PARTICIPATION ***
PHENOTYPE DAY AT ISMB 2014 - A JOINT INITIATIVE WITH BIO-ONTOLOGIES and
BIOLINK SIGS
Boston, USA
12th July 2014
http://phenoday2014.bio-lark.org/
Registration with Bio-Ontologies SIG is open now at:
http://www.iscb.org/ismb2014-registration
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- Invited speakers: Prof. Dr. Peter Robinson (Charite Berlin) and Dr.
Dietrich Rebholz-Schuhmann (University of Zurich)
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*** PROGRAM ***
8:30 8:40 Introduction and welcome
8:40 9:00 Xiao Fu, Riza Theresa Batista-Navarro, Rafal Rak and Sophia
Ananiadou: A Strategy for Annotating Clinical Records with Phenotypic
Information relating to the Chronic Obstructive Pulmonary Disease.
9:00 9:20 Apurv Patki, Abeed Sarker, Pranoti Pimpalkhute, Azadeh
Nikfarjam, Rachel Ginn, Karen O'Connor, Karen Smith and Graciela
Gonzalez: Mining Adverse Drug Reaction Signals from Social Media: Going
Beyond Extraction.
9:20 9:40 Nigel Collier, Anika Oellrich and Tudor Groza: Concept
selection for phenotypes and disease-related annotations using support
vector machines.
9:40 10:00 Simon Jupp, James Malone, Tony Burdett, Jean-Karim Heriche,
Jan Ellenberg, Helen Parkinson and Gabriella Rustici
: Data driven development of a Cellular Microscopy Phenotype Ontology.
10:00 10:45 Coffee Break
10:45 11:30 Rainer Winnenburg and Olivier Bodenreider: Coverage of
Phenotypes in Standard Terminologies.
10:55 11:05 Nicole Washington, Melissa Haendel, Sebastian Kohler,
Suzanna Lewis, Peter Robinson, Damian Smedley and Christopher Mungall:
How good is your phenotyping? Methods for quality assessment.
11:05 11:15 Cynthia Smith and Janan Eppig: Expanding the Mammalian
Phenotype Ontology to support high throughput mouse phenotyping data
from large-scale mouse knockout screens.
11:15 12:15 Invited talk: Peter Robinson – The Human Phenotype Ontology:
Algorithms and Applications
12:15 2:00 Lunch
2:00 2:20 Mary Regina Boland, Nicholas P Tatonetti and George Hripcsak:
CAESAR: a Classification Approach for Extracting Severity Automatically
from Electronic Health Records.
2:20 2:30 Drashtti Vasant, James Malone, Helen Parkinson, Simon Jupp,
Laetitia Chanas, Ana Rath, Marc Hanauer, Annie Olry and Peter Robinson:
ORDO: An Ontology Connecting Rare Disease, Epidemiology and Genetic Data.
2:30 2:40 Charles Borromeo, Jeremy Espino, Nicole Washington, Maryann
Martone, Christopher Mungall, Melissa Haendel and Harry Hochheiser:
Toward interactive visual tools for comparing phenotype profiles.
2:40 2:50 James Balhoff, Thomas Alexander Dececchi, Paula Mabee and
Hilmar Lapp: Presence-absence reasoning for evolutionary phenotypes.
2:50 2:55 Irene Papatheodorou, Anika Oellrich and Damian Smedley:
Linking gene expression to phenotypes via pathway information.
2:55 3:00 Poster lightning talks
3:00 4:00 Coffee Break + Posters
Ivo Georgiev: Aggregating the world's rare disease phenotypes: A case study
Kenneth McLeod: PhenoImageShare:tools for sharing phenotyping images
Nicole Washington: Investigating the relationship between standard
laboratory mouse strains and their mutant phenotypes.
Liqin Wang: Can we acquire a complete heart-failure vocabulary from
heterogeneous textual sources for building reference disease ontology?
4:00 5:00 Invited talk: Dietrich Rebholz-Schuhmann – Semantic
normalisation of phenotypes for biomedical data integration:
requirements, status and caveats.
5:00 5:10 Nigam Shah: BioOntologies overview
5:10 5:55 Whitepaper Working groups
5:55 6:00 Closing remarks
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Nigel Collier (EMBL-EBI and NII)
Anika Oellrich (Wellcome Trust Sanger Institute)
Tudor Groza (University of Queensland)
Karin Verspoor (University of Melbourne)
Nigam Shah (Stanford University)
