TransMed 2019

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Description

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 COSI meeting, we will explore the current status of computational biology approaches within the field of translational medicine.

Information of previous TransMed meeting(s) can be found here.

Link to the ISMB/ECCB 2019 website is: here

Please note:

  • The TransMed COSI meeting will take place on July 22nd, 2019, during the ISMB/ECCB 2019, Basel, Switzerland.


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

Isaac Kohane, Department of Biomedical Informatics, Harvard Medical School

Keynote title: Five ways computational biologists can accelerate medicine

Burkhard Rost, Technische Universität München

Keynote title: SNAP variation between people + Deep Learning - lessons for protein structure prediction

Bissan Al-Lazikani, The Institute of Cancer Research

Keynote title: Harnessing Big, Multidisciplinary Data to Inform Cancer Medicine

Agenda

Start time End time Topic
10:15 AM 10:20 AM Welcome & Start - Reinhard Schneider
10:20 AM 11:10 AM Keynote - Five ways computational biologists can accelerate medicine - Isaac Kohane
11:10 AM 11:20 AM Proceedings - Prioritising cancer therapeutic targets through CRISPR-Cas9 screens and multi-omics data integration - Francesco Iorio
11:20 AM 11:40 AM Proceedings - Predicting drug-induced transcriptome responses of a wide range of human cell lines by a novel tensor-train decomposition - Michio Iwata
11:40 AM 12:00 PM Proceedings - Identifying and ranking potential driver genes of Alzheimer's Disease using multi-view evidence aggregation - Sumit Mukherjee
12:00 PM 12:20 PM Proceedings - Drug repositioning based on bounded nuclear norm regularization - Mengyun Yang
12:20 PM 12:40 PM Proceedings - Enhancing the Drug Discovery Process: Bayesian Inference for the Analysis and Comparison of Dose-Response Experiments - Caroline Labelle
12:40 PM 2:00 PM Lunch
2:00 PM 2:40 PM Keynote - SNAP variation between people + Deep Learning - lessons for protein structure prediction - Burkhard Rost
2:40 PM 3:00 PM Proceedings - Representation Transfer for Differentially Private Drug Sensitivity Prediction - Antti Honkela
3:00 PM 3:20 PM Proceedings - Deep Learning with Multimodal Representation for Pancancer Prognosis Prediction - Olivier Gevaert
3:20 PM 3:30 PM Rare Disease Gene Prioritization Using MEDLINE Derived Association Network - Vg Saipradeep
3:30 PM 3:40 PM Identifying Biomarkers for Precision Cancer Medicine using Patient-Derived Xenografts - Arvind Singh Mer
3:40 PM 3:50 PM Harnessing genetic interactions to advance precision cancer medicine - Joo Sang Lee
3:50 PM 4:00 PM Combining Machine Learning with Single-cell Analysis for Individualized Precision Medicine - Benedict Anchang
4:00 PM 4:40 PM Break
4:40 PM 5:10 PM Keynote - Harnessing Big, Multidisciplinary Data to Inform Cancer Medicine - Bissan Al-Lazikani
5:10 PM 5:20 PM Genetic alterations driving metastatic colony formation are acquired outside of the primary tumour in melanoma - Martin Hoffmann
5:20 PM 5:30 PM Using genetic similarities among ageing-related diseases to understand and intervene ageing - Handan Melike Donertas
5:30 PM 5:40 PM Clustering multivariate longitudinal clinical patient data using variational deep embedding with recurrence - Johann de Jong
5:40 PM 5:50 PM From question to publication in five days - how OHDSI is changing medical evidence generation through open science - Kees van Bochove
5:50 PM 6:00 PM Invited talk - CDx / NGS & Regulation: 5 perspectives from the Pistoia Alliance - Dominic Clark
6:00 PM Conclusion Remarks - Venkata Satagopam

Abstract submission

Authors are invited to submit abstracts (1 page) for presentations and posters by April 11th, 2019. Acceptance notification will be sent out by May 9th, 2019.

For proceedings submission the deadline is Monday, January 28, 2019

Please use the EasyChair submission system.

Key dates

  • Detail information can be found: here.

Venue

The TransMed COSI meeting will take place on July 21th-25th, 2019, during the ISMB/ECCB 2019, Basel, Switzerland.

Sponsorship

We would like to thank our sponsors:

for their kind support:


Registration

Please follow the registration page on the ISMB website: TransMed COSI 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

Maria Secrier, University College London, UK

Wei Gu, Luxembourg Centre For Systems Biomedicine (LCSB), University of Luxembourg, Luxembourg

Mansoor Saqi, King’s College London, UK

Irina Balaur, European Institute for Systems Biology and Medicine, Lyon, France

Programme committee (alphabetical order)

Sanne Abeln, Vrije Universiteit Amsterdam, The Netherlands
Miguel Angel Pujana, Catalan Institute of Oncology, Spain
Irina Balaur, European Institute for Systems Biology and Medicine, France
Peter Banda, University of Luxembourg, Luxembourg
Adriano Barbosa-Silva, Queen Mary University of London, UK
Nyasha Chambwe, Institute for Systems Biology, USA
Xuefeng Cui, Tsinghua University, China
Renee de Menezes, Amsterdam UMC, The Netherlands
Olivier Gevaert, Stanford University, USA
Wei Gu, University of Luxembourg, Luxembourg
Xiaoke Hao, Hebei University of Technology, China
Winston Hide, University of Sheffield, UK
Francesco Iorio, Wellcome Sanger Institute, UK
Yu-Chen Lo, Stanford University, USA
Gang Luo, University of Washington, USA
Patrick May, University of Luxembourg, Luxembourg
Shawn Murphy, Partners Healthcare, USA
Sabine Peres, Laboratoire de Recherche en Informatique, France
Thang Pham, Amsterdam UMC, The Netherlands
Anguraj Sadanandam, The Institute of Cancer Research, UK
Mansoor Saqi, King's College London, UK
Venkata Satagopam, University of Luxembourg, Luxembourg
Maria Secrier, University College London, UK
Chaochun Wei, Shanghai Jiao Tong University, China
Joachim Weischenfeldt, University of Copenhagen, Denmark
Bart Westerman, Amsterdam UMC, The Netherlands

Contact us

If you have any questions, please do not hesitate to contact us: transmed-cosi-chair@googlegroups.com.

Follow us

Google Groups: TransMed2019 Google Group

Twitter: #TransMed2019

Linkedin: Translational Medicine Informatics & Applications Group

Acknowledgement

The current TransMed logo was designed by Belinda Hanson.

The previous TransMed logo was designed by Alexandre Pellet, www.alexandrepellet.com.