TransMed 2016: Translational Medicine Informatics & Applications
Knowledge-based translational medicine is a rapidly growing discipline in biomedical research and aims to expedite the discovery of new diagnostic tools and treatments by using a multi-disciplinary, highly collaborative, "bench-to-bedside" approach. Large amounts of multi-omics, imaging (medical and molecular) and clinical data can now be captured for given patient populations. In addition to the challenges of data curation and harmonisation, new computational methods are required to identify molecular signatures that suggest disease subtype. These signatures may be predictive of outcome or progression, and impact on disease management by suggesting personalised therapeutic strategies for patients. Such approaches will further the development of a new taxonomy of disease.
In the TransMed SIG meeting, we will explore the current status of computational biology approaches within the field of translational medicine.
Topics of interest
Topics of interest include, but are not limited to:
- Clinical and molecular data storage and integration infrastructure, including: data warehousing for translational medicine, multi-‘omics and clinical data integration, data visualization in translational medicine
- Curation and harmonization of clinical, ‘omics and imaging data, including: standards and ontologies in translational medicine, biomedical text mining and semantic representation
- Data analytics for patient stratification, biomarker and target discovery, including: disease subtype discovery, Electronic Health Records integration, translational imaging, multi-scale modelling, high performance and cloud computing in translational medicine, mathematical modelling for disease processes, pathways and networks
- Computational approaches for target selection and drug discovery, including: druggability assessment and target selection, polypharmacology, drug reuse, chemical library design, virtual screening technologies, drug discovery enabler pipelines and databases, chemical tool analysis.
- ADME/PK and Tox models, including: databases and modeling approaches for ADME and PK, machine learning approaches to predicting toxicity, modeling of pharmacokinetics to man and model organism utility models.
- Translational Medicine Informatics Applications/Case Studies, including: Next generation sequencing annotation and biomedicine applications, clinical data integration and application.
Russ Altman, Professor of Bioengineering, Genetics, Medicine and Computer Science; Director, Biomedical Informatics Training Program, School of Medicine, Stanford University
John Overington, Director of Bioinformatics at Stratified Medical, Visiting Professor at the Institute of Cardiovascular Science, University College London and the Farr Institute
Sean Mooney, Professor of Biomedical Informatics and Medical Education, University of Washington, Chief Research Information Officer (CRIO) of UW Medicine
Martin Hofmann-Apitius, Professor for Applied Life Science Informatics at the Bonn-Aachen International Centre for Information Technology (B-IT) at the University of Bonn, Head of the Department of Bioinformatics at Fraunhofer Institute for Algorithms and Scientific Computing (SCAI), Germany
|Start time||End time||Topic|
|8,30||8,45||Intro & Welcome - Reinhard Schneider|
|8,45||9,30||Keynote - Regulatory Science: a defining element of translational medicine - Russ Altman|
|9,30||9,50||Lynx: Knowledge Base and an Analytical Workbench for Integrative Medicine - Somaye Hashemifar|
|9,50||10,10||Reproducible Genomic Interpretation Tools for Translational Medicine: Application to An N of 1 Case Study - Kathleen Fisch|
|10,10||10,30||A deep-learning-based cancer subtyping framework using functional profiles overcomes the intrinsic limitations of signature-gene-based approach - Feng Gao|
|10,45||12,30||Chair: Irina Balaur|
|10,45||11,30||Keynote - Mining a large-scale integrated data resource for target and lead discovery - John Overington|
|11,30||11,50||Translational Medicine Informatics using VarElect - Marilyn Safran|
|11,50||12,10||Individual genome interpretation of rare disorders in newborns - Aashish Adhikari|
|12,10||12,30||Lightning Round 1 slide, 1 poster, 2 minutes|
|12,30||1,30||Lunch + Posters|
|1,30||3,30||Chair: Wei Gu|
|1,30||2,15||Keynote - Enabling the Digital Health Revolution at an Academic Medical Center Through Innovative Uses of Data - Sean Mooney|
|2,15||2,35||Findings from the Fourth Critical Assessment of Genome Interpretation, a community experiment to evaluate phenotype prediction - Steven Brenner|
|2,35||2,55||Activation of immune/ inflammatory response related co-expression modules in the hippocampus of schizophrenia - Sanghyeon Kim|
|2,55||3,15||Biospeak-DB: A Standard Compliant Repository for Translational Research Studies - Ibrahim Emam|
|3,30||4,00||Afternoon Tea & Posters|
|4,00||5,15||Chair: Bissan Al-Lazikani|
|4,00||4,30||NDEx, the Network Data Exchange: Disease Communities via Shared Networks - Dexter Pratt|
|4,30||5,15||Keynote - Bioinformatics Mining and Modeling Methods for the Identification of Disease Mechanisms in Neurodegenerative Disorders - Martin Hofmann-Apitius|
|5,15||5,45||Round table discussion - All|
|5,45||6,00||Concluding Remarks- Bissan Al-Lazikani|
Authors are invited to submit abstracts (1 page) for presentations and posters by May 27, 2016. Acceptance notification will be sent out by May 31, 2016.
Please use the EasyChair submission system: https://easychair.org/conferences/?conf=transmed2016 .
- Call for one-page abstracts opens: March 1, 2016
- Abstract submissions deadline: Extended to May 27, 2016
- Poster and Presentation acceptance notifications: Extended to May 31, 2016
- Final program available: Extended to June 10, 2016
- TransMed 2016 SIG: July 8, 2016
The TransMed SIG meeting will take place on July 8, 2016, during the ISMB 2016, in Orlando, USA and will be co-located with the main conference at The Swan and Dolphin, an Ideal Location on a Disney World Resort.
Please follow the registration page on the ISMB website: SIGs Registration.
Venkata Satagopam, Luxembourg Centre For Systems Biomedicine (LCSB), University of Luxembourg, Luxembourg
Bissan Al-Lazikani, The Institute of Cancer Research, London, UK
Reinhard Schneider, Luxembourg Centre For Systems Biomedicine (LCSB), University of Luxembourg, Luxembourg
Mansoor Saqi, European Institute for Systems Biology and Medicine, Lyon, France
Wei Gu, Luxembourg Centre For Systems Biomedicine (LCSB), University of Luxembourg, Luxembourg
Irina Balaur, European Institute for Systems Biology and Medicine, Lyon, France
If you have any questions, please do not hesitate to contact us: firstname.lastname@example.org.
Google Groups: TransMed2016 Google Group
The TransMed logo was designed by Alexandre Pellet, www.alexandrepellet.com.