Last Call for Participation
1st Workshop on Biomedical Information Management: Challenges and Open Problems
Date: February 19/20, 2018 Location: Hamburg, Germany
Important dates: - Registration: until Feb. 12. Registration is free of charge but we require you to register on the website (http://www.bimdanube.eu/ws1/registration) for further planing.
The workshop will gather interested professionals across Europe working in the information or medical domain, such as medical researchers, medical doctors and entrepreneurs building their business around biomedical ICT.
The goal of the workshop is to obtain answers to the following questions:
* Use Cases: Experiences with information and knowledge management solutions actively used in the community * Limitations of the current solutions * Practitioner's view: Important problems in biomedical information management that are not addressed and automatized yet * Educator's view: Important information bottlenecks in teaching medical students * Proposals for next generation biomedical information management * Artificial Intelligence in the Biomedical domain and in life sciences, including image/video, laboratory, EEG/MRT, -omics and text data * Stakeholder's perspectives: Practitioners, Administration, Insurances, Researchers, Pharmaceutical Industry, …
The workshop will feature a series of long invited talks, several participant's talks, a moderated panel discussion and ample time for networking and exchange.
Tentative schedule: Monday, Feb. 19th 09:30-10:00 meet and greet 10:00-10:30 Introduction BIMDANUBE Chris Biemann, Andreas Holzinger, Ljiljana Majnarić, Svetla Boytcheva 10:30-11:25 Invited talk Ulf Leser: "Biomedical Text Mining meets Big Data" 11:25-11:35 break 11:35-12:30 Invited talk Daniel Keim: "Visual Analytics: Combining Analytics and Visualizations for Gaining Insights into Biomedical Data" 12:30-14:00 lunch 14:00-14:55 Invited talk Udo Hahn: "All Clinical Languages, other than English, are Low-Resourced – Some Suggestions for Therapy" 14:55-15:10 Presentation Seid Muhi Yimam: "Entity-Centric Information Access with the Human-in-the-Loop for the Biomedical Domains" 15:10-15:25 Presentation Steffen Remus: "TBA" 15:25-15:35 break 15:35-16:30 Invited talk Hercules Dalianis: "HEALTH BANK - A Workbench for Data Science Applications in Healthcare" 16:30-17:00 Presentation Matthias Rarey: "Managing Large Protein Structure Collections" 17:00-17:10 break 17:10-18:00 Panel discussion (3 rounds of questions) 18:00-19:30 Proceed to restaurant 19:30-... Dinner: Dübelsbrücker Kajüt
Tuesday, Feb. 20th 09:00-09:30 coffee 09:30-10:25 Invited talk Philipp Cimiano: "Extracting information from pre-clinical studies in the domain of spinal chord injuries: preliminary results" 10:25-10:55 Presentation Kilian Foth: "We present a series of experiments for automatically aggregating information from postings ..." 11:20-11:30 break 11:30-12:25 Invited talk Sophia Ananiadou: "Automatic pathway reconstruction using text mining and visual analytics" 12:25-12:55 Presentation Jurica Seva: "Diagnosis and treatment decisions in cancer increasingly depend on the analysis of..." 12:55-14:00 lunch 14:00-14:30 Presentation Andreas Holzinger: "Explainable AI: opening the black-box with the human-in-the-loop" 14:30-14:45 Presentation Simone Frintrop, Timo Gerkmann, Tobias Knopp, Alexander Schlaefer: "Adaptive cross-modal sensor data acquisition" 14:45-15:00 Presentation Ljiljana Majnaric: "Experience in research based on using routine data from GP eHRs in a low resource research environment" 15:00-15:15 Presentation Sonja Hatz: "Hypothesis validation in information dense biomedical research areas by text mining and advanced analytics" 15:15-15:30 Presentation Dimitri Pauls and Kilian Foth: "Deep Relation Extraction from Biomedical Literature" 15:30-16:00 Closing remarks & summary
For more details, please see the website http://bimdanube.eu/ws1/
Background: Recently, information management as a field faced several challenges. On one hand, sophisticated technologies and standards were developed to support knowledge-based modelling, such as domain ontologies including UMLS, SNOMED CT, MeSH, Disease Ontology, and Gene Ontology and the Semantic Web description languages and infrastructures including RDF, OWL, SPARQL and others. On the other hand, however the current approaches face three major issues: (1) knowledge bottleneck: required resources for knowledge management such as domain ontologies are not available for many domains and languages; (2) the overall approach of knowledge management did not get widely spread due to the fact that it imposes a large burden on the user, such as annotation or expertise with complex tools like Protégé; (3) modelling entire domains as large as the medical domain with (English-oriented) knowledge resources does not meet requirements of users, who are mostly specializing in a certain sub-field and also need to operate in their local language. Medical researchers have to process an enormous amount of the literature – PubMed adds about half a million papers to its index each year. Literature search and reasoning is demanding, because of the need to revealing and maintaining many complex relationships between numerous sets of entities. In order to alleviate the efforts of biomedical research related to literature we seek a novel conception to information management, combining ontology-driven with bottom-up approaches.
Goals: The workshop is funded by the BIMDANUBE project (http://www.bimdanube.eu), which aims at building a network of researchers and medical professionals in the Danube states and across all Europe. While the main purpose is to get to know each other and to foster exchange, we also target a major grant application in the EU H2020 framework in 2019, and are actively looking for partners form research and industry.
Venue: The workshop will take place at the University of Hamburg in Hamburg, Germany. "University of Hamburg is the biggest research and education institution in Northern Germany and one of the most extensive universities in Germany. ... with affiliated institutes and research centres spread around the city state." [Wikipedia]
Be part of this exciting opportunity! Contribute to the next generation of biomedical information management! Please find more information at http://www.bimdanube.eu/ws1, register at http://www.bimdanube.eu/ws1/registration, or submit your inquiries to Steffen Remus (<remus at informatik.uni-hamburg.de>). Looking forward to your participation.
Workshop organizers: * Chris Biemann, University of Hamburg, Germany * Andreas Holzinger, Medical University Graz and Vienna University of Technology, Austria * Ljiljana Majnarić, University of Osijek, Croatia * Svetla Boytcheva, Bulgarian Academy of Sciences, Bulgaria * Steffen Remus (local chair), University of Hamburg, Germany
--- PS: Please distribute this invitation to anyone who might be interested.