Category Archives: News

ERACoSysMed: Pre-announcement of the “2nd Joint Transnational Call for European Research Projects on Systems Medicine”

ERACoSysMed is a network of 15 funding organisations from 13 countries. The central aim of ERACoSysMed is to enhance the implementation of Systems Biology approaches in medical concepts, research and practice throughout Europe and Israel by structuring, coordinating and integrating national efforts and investments. ERACoSysMed is a five year programme funded under the European Commission ERA-NET Cofund scheme in the H2020 Horizon programme which has begun in January 2015.

Pre-Announcement of the “2nd Joint Transnational Call for European Research Projects on Systems Medicine” (PDF)

Systems Medicine: Modeling chronic diseases through the Synergy-COPD project

Source: BioMed Central

This text discusses a supplement published in Journal of Translational Medicine based on the work of Synergy-COPD. The final aim of Synergy-COPD was the development and the application in both research and clinical context of a patient-specific computer based model and simulation by integrating data from different disciplines into biological models via mathematics and its application into a clinical setting.

It is widely accepted that chronic diseases represent 77% of the total disease burden on healthcare costs and they have marked consequences on both disability and mortality. This societal and economic burden is only expected to increase over the next decades. Synergy-COPD has shown that a reduction of healthcare costs will only be achieved through a combined effort in the following two dimensions. Firstly, to increase our physiological and biological understanding of underlying mechanisms of chronic diseases. And, secondly, to implement predictive medicine and clinical decision support solutions that will optimize diagnosis, improve patient management and personalize treatments with an integrated care approach.

To accomplish both these goals in a single effort, we have designed the Synergy-COPD project. In this, we have addressed differences among patients with chronic obstructive pulmonary disease (COPD), in terms of clinical manifestations and/or disease progress.

Using ‘Systems Medicine’

Our hypothesis was that the development of a ‘Systems Medicine’ approach could contribute to cost-effective enhancements of health outcomes. This approach uses computational modeling to understand chronic diseases alongside a technology development which allows the transfer of that acquired knowledge into healthcare.

To this end, Synergy-COPD involves a multi-disciplinary team that includes clinicians, biologists, computational scientists, software developers and mathematicians among others. A brief introduction and overview of Synergy-COPD is available here.

Understanding COPD

Using the Systems Medicine concept to study human body as an integrated whole, we aimed to characterize two sources of heterogeneity in COPD patients. Those are the systemic effects associated with skeletal muscle dysfunction and co-morbidity patterns of these patients. Importantly, we also want to uncover the interplay between them.

Each source of heterogeneity was studied through a different set of tools, but using in all cases the same underlying framework. The framework considers three steps: the first step is the identification of relevant candidate biomarkers; secondly, the use of those candidate biomarkers for the design of health-risk predictive modelling for COPD patients; and, finally, the study of clinical application for those models. You can read about the different modelling methodologies used in the Synergy-COPD project here.

Transferring the knowledge

The Systems Medicine approach requires complex knowledge and large amounts of data to build the models. In order to facilitate the access and use of all this, a set of tools, components of the Digital Health Framework (more on that later), have been developed.

The first major resource generated is an extended publicly available COPD Knowledge Base (COPDKB), that integrates more than 40 public data sources on functional interaction, COPD-specific mRNA profiles and co-morbidity networks connecting more than 6,000 genes/proteins with physiological parameters and disease states.

Furthermore, three mathematical models describing different aspects of systemic effects of COPD were connected to clinical and experimental data.

Finally, the COPDKB has been integrated into the two main tangible outcomes: the –Synergy-COPD Simulation Environment (COPDSE), freely accessible at sourceforge. The latter constitutes a first step toward the simulation of individual models. The third outcome is the Clinical Decision Support System (CDSS) that allows practical support to clinicians.

Clinical Applications

The understanding of COPD that we’ve gained through the project should be used to enhance successful deployment and adoption of 4P Medicine – Predictive, Preventive, Personalized and Participatory.

The Clinical Decision Support Systems we developed was embedded into clinical processes with the purpose of bringing novel knowledge into clinical practice and supporting health professionals in the clinical decision making process.

The lessons learned during the project in terms of management of clinical and biomedical data generated the Digital Health Framework (DHF) concept. It is postulated that data exchange and interoperability among different points of care and biomedical data warehouses become crucial and should be facilitated by the implementation of the DHF.

The challenges and opportunities of Synergy-COPD

In the three and a half years of Synergy-COPD, we were faced with several limitations and challenges. One challenge is the synchronization of vocabulary and definitions among all partners. This highlighted the need to update or revisit the existing biomedical syllabus to prepare the next generation of researchers that will work in even more multidisciplinary environments.

A second challenge was the limiting factor of data availability to study the issues addressed in the project. It was observed that most of the published research reporting -omic data (e.g. transcriptomics, genotypes, DNA Methylation etc.) with a disease-oriented approach does not include context information on co-morbidity. Accordingly, we need to prioritise projects where both -omic information on disease and patient-centred co-morbidities approaches are considered in the reporting. There are also benefits that the approach may provide in the future to personalized medicine in COPD and other complex diseases.

We consider that the deployment of integrated care services supported by information and communication technologies, can contribute to enhance health outcomes in chronic care models without increasing overall costs of the health system, as shown by different initiatives deploying integrated care.

Importantly, healthcare efficiencies can be boosted by promoting a more active role for patients and carers in self-management and co-design of the services; and, fostering cost-effective preventive strategies aiming at slowing the progress of the disease.

These two strategic proposals will require bridging the gap between traditional healthcare delivery at hospitals and primary care units with informal care. A challenging task, but we believe not an impossible one.

To see the article, click here:


The Computational Medicine Team
Karolinska Institutet

New Publication – Systems medicine in chronic diseases: COPD as a use case

Eight new Systems Medicine Papers are available online!

Chronic obstructive pulmonary disease (COPD) is a prevalent chronic disorder that affects approximately 9% of adult population above 45 years. The disease imposes a high burden on healthcare systems and it is currently the fourth cause of mortality worldwide.
Several reasons seem to support the selection of COPD as a use case to explore novel strategies to enhance knowledge on chronic diseases and to improve chronic patient management with an integrated care approach. First among these factors favoring the selection of COPD is its high prevalence and burden on health systems. A second reason is that the long-term COPD evolution may facilitate the assessment of the effects of preventive strategies on disease progression

Here the link to access the entire supplement:


The Computational Medicine Team

Karolinska Institutet

The CASyM roadmap is available for download

After a two year cross-disciplinary consultation process the Coordinating Action Systems Medicine (CASyM) published its European implementation strategy (roadmap) for Systems Medicine.  The vision of this roadmap is to develop Systems Medicine into a practical framework that assists clinical decision making and the design of personalised prevention and treatment plans. Central to this is a systems approach that addresses clinical questions and provides solutions to the most pressing clinical challenges such as the results of an ageing population, increased needs for social care and a growing burden of curing and caring for patients with cancer.

First call ERASysAPP – ERANET on systems biology applications

In order to strengthen the applied aspects of systems biology, a consortium of ten funding agencies from nine European countries has joined forces through the ERA-Net ERASysAPP. The main objective of the first joint call is to generate transnational collaboration for research and development on systems biology in the European Research Area, with a particular focus on application-oriented and/or industry-relevant systems biology research.