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

Keynote speakers

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 Type Topic Speaker
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 Proceedings Lynx: Knowledge Base and an Analytical Workbench for Integrative Medicine Somaye Hashemifar
9,50 10,10 Proceedings Reproducible Genomic Interpretation Tools for Translational Medicine: Application to An N of 1 Case Study Kathleen Fisch
10,10 10,30 Proceedings A deep-learning-based cancer subtyping framework using functional profiles overcomes the intrinsic limitations of signature-gene-based approach Feng Gao
10,15 10,45 Coffee_Break Morning Coffee All
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 Proceedings Translational Medicine Informatics using VarElect Marilyn Safran
11,50 12,10 Proceedings Individual genome interpretation of rare disorders in newborns Aashish Adhikari
12,10 12,30   Lightning Round 1 slide, 1 poster, 2 minutes All
12,30 1,30   Lunch + Posters All
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 Proceedings Findings from the Fourth Critical Assessment of Genome Interpretation, a community experiment to evaluate phenotype prediction Steven Brenner
2,35 2,55 Proceedings Activation of immune/ inflammatory response related co-expression modules in the hippocampus of schizophrenia Sanghyeon Kim
2,55 3,15 Proceedings Biospeak-DB: A Standard Compliant Repository for Translational Research Studies Ibrahim Emam
3,30 4,00 Coffee_Break Afternoon Tea & Posters All
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

Abstract submission

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.

Key dates


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.


We would like to thank our sponsors Luxembourg Centre For Systems Biomedicine (LCSB), University of Luxembourg for their kind support:


Please follow the registration page on the ISMB website: SIGs Registration.

Organizing committee

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

Contact us

If you have any questions, please do not hesitate to contact us:

Follow us

Google Groups: TransMed2016 Google Group

Twitter: #TransMed2016

Linkedin: Translational Medicine Informatics & Applications Group


The TransMed logo was designed by Alexandre Pellet,

For more information on the TransMed 2021 meeting please go here.