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SAGE-CARE

SemAntically integrating Genomics with Electronic health records for Cancer CARE

Total Cost €

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EC-Contrib. €

0

Partnership

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Project "SAGE-CARE" data sheet

The following table provides information about the project.

Coordinator
HOCHSCHULE DARMSTADT (UNIVERSITY OF APPLIED SCIENCES H-DA) 

Organization address
address: HAARDTRING 100
city: DARMSTADT
postcode: 64295
website: www.h-da.de

contact info
title: n.a.
name: n.a.
surname: n.a.
function: n.a.
email: n.a.
telephone: n.a.
fax: n.a.

 Coordinator Country Germany [DE]
 Project website http://www.sage-care.eu/
 Total cost 450˙000 €
 EC max contribution 450˙000 € (100%)
 Programme 1. H2020-EU.1.3.3. (Stimulating innovation by means of cross-fertilisation of knowledge)
 Code Call H2020-MSCA-RISE-2014
 Funding Scheme MSCA-RISE
 Starting year 2014
 Duration (year-month-day) from 2014-12-01   to  2018-11-30

 Partnership

Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 
1    HOCHSCHULE DARMSTADT (UNIVERSITY OF APPLIED SCIENCES H-DA) DE (DARMSTADT) coordinator 162˙000.00
2    NSILICO LIFE SCIENCE LIMITED IE (DOUGLAS) participant 220˙500.00
3    GIOUMPITEK MELETI SCHEDIASMOS YLOPOIISI KAI POLISI ERGON PLIROFORIKIS ETAIREIA PERIORISMENIS EFTHYNIS EL (ATHINA) participant 40˙500.00
4    UNIVERSITA DEGLI STUDI DI NAPOLI FEDERICO II IT (NAPOLI) participant 27˙000.00
5    THE UNIVERSITY OF EDINBURGH UK (EDINBURGH) participant 0.00

Map

 Project objective

The aim of this project is to bring together subject matter experts from the academic and non-academic sectors to create a holistic informatics platform for rapidly integrating genomic sequences, electronic health records (EHRs) and research repositories to enable personalised medicine strategies for malignant melanoma treatment.

The consortium has engaged in a pre-proposal process with active clinical end users who have highlighted the need for more innovative approaches for the treatment of cancer - in particular the treatment of malignant melanoma, including inter alia the ability to rapidly query of geno-phenotype associations in melanoma such as the recently discovered rs2301641 SNP variability with ABCB5 function and CDK4 gene indicators .

Hence we aim to develop a scalable HPC framework that allows the semantic interlinking between spatially distributed electronic patients’ health records, associated genomic sequences and published research, thereby allowing clinicians to make reasoned queries over vast knowledge bases for the diagnosis, treatment and management of malignant melanoma.

 Deliverables

List of deliverables.
Peer-reviewed papers & technical reports Websites, patent fillings, videos etc. 2019-09-06 08:35:30
Academic papers and technical reports Websites, patent fillings, videos etc. 2019-09-06 08:35:30
Papers and technical reports Websites, patent fillings, videos etc. 2019-09-06 08:35:30
Technical Reports Websites, patent fillings, videos etc. 2019-09-06 08:35:30
Web and mobile user applications Demonstrators, pilots, prototypes 2019-09-06 08:35:30
Academic review papers Websites, patent fillings, videos etc. 2019-09-06 08:35:30

Take a look to the deliverables list in detail:  detailed list of SAGE-CARE deliverables.

 Publications

year authors and title journal last update
List of publications.
2017 Patrick Spitzer
A Dynamic Product Line for an Electronic Health Record Management System in Cancer Care
published pages: , ISSN: , DOI:
2019-09-06
2016 Dimitrios Ntalaperas
An approach for anonymization of sensitive clinical and genetic data based on Data Cube Structures
published pages: , ISSN: , DOI:
Proceedings of the Collaborative European Research Conference 2019-09-06
2017 Ntalaperas, A. Bouras: A
Utilizing High Performance Computing Techniques for efficiently anonymizing sensitive patient data
published pages: , ISSN: , DOI:
Proceedings of the Collaborative European Research Conference (CERC 2017) 2019-09-06
2015 Brendan Lawlor, Paul Walsh
Engineering bioinformatics: building reliability, performance and productivity into bioinformatics software
published pages: 193-203, ISSN: 2165-5979, DOI: 10.1080/21655979.2015.1050162
Bioengineered 6/4 2019-09-06
2016 Paul Walsh and Brendan Lawlor
THE DNA DATA DELUGE - A Parallel Computing Approach,
published pages: , ISSN: , DOI:
PRACE Scientific and Industrial Conference 2015 2019-09-06
2016 Brendan Lawlor and Paul Walsh
The Weekend Warrior: How to build a genomic supercomputer in your spare time using Streams and Actors in Scala
published pages: , ISSN: , DOI:
ScalCom 2016 : The 16th IEEE International Conference on Scalable Computing and Communications 2019-09-06
2017 Tino Landmann
Evidence-Based Medical Recommendations for Personalized Medicine
published pages: , ISSN: , DOI:
2019-09-06
2016 Bernhard G. Humm
Applied Artificial Intelligence - An Engineering Approach
published pages: , ISSN: , DOI:
2019-09-06
2015 Ulrich Beez
Terminology-Based Retrieval of Medical Publications
published pages: , ISSN: , DOI:
2019-09-06
2016 Paul Walsh, Brendan Lawlor, Brian Kelly, Timmy Manning, Timm Heuss and Markus Leopold
Rapidly Visualizing NGS Cancer Data Sets with Cloud Computing
published pages: , ISSN: , DOI:
AVI 2016 INTERNATIONAL WORKING CONFERENCE ON ADVANCED VISUAL INTERFACES 2019-09-06
2016 Markus Leipold Suypervised by Paull Walsh and Bernhard Humm
A Pipeline for Differential Gene Expression Analysis
published pages: , ISSN: , DOI:
2016 Abschlussarbeit zur Erlangung des akademischen Grades Master of Science (M. Sc.) 2019-09-06
2015 David Cormnican, Supervisor: Paul Walsh
Gene Expression Profiling of Melanoma
published pages: , ISSN: , DOI:
MSc Thesis 2019-09-06
2016 Johannes Idelhauser
A Clinical Decision Support System for Personalized Medicine
published pages: , ISSN: , DOI:
2019-09-06
2018 Daniel Ebanja
Integrating Clinical Decision Support in a Product Line for Electronic Health Record Management
published pages: , ISSN: , DOI:
2019-09-06
2018 Alejandro Santamaria de Lomas
Data Historization in an Electronic Health Record Management System
published pages: , ISSN: , DOI:
2019-09-06
2016 Timm Heuss
A Framework to Support Developers in the Integration and Application of Linked and Open Data
published pages: , ISSN: , DOI:
2019-09-06
2018 Gil Alterovitz, Dennis Dean, Carole Goble, Michael R. Crusoe, Stian Soiland-Reyes, Amanda Bell, Anais Hayes, Anita Suresh, Anjan Purkayastha, Charles H. King, Dan Taylor, Elaine Johanson, Elaine E. Thompson, Eric Donaldson, Hiroki Morizono, Hsinyi Tsang, Jeet K. Vora, Jeremy Goecks, Jianchao Yao, Jonas S. Almeida, Jonathon Keeney, KanakaDurga Addepalli, Konstantinos Krampis, Krista M. Smith, Lydia Guo, Mark Walderhaug, Marco Schito, Matthew Ezewudo, Nuria Guimera, Paul Walsh, Robel Kahsay, Srikanth Gottipati, Timothy C. Rodwell, Toby Bloom, Yuching Lai, Vahan Simonyan, Raja Mazumder
Enabling precision medicine via standard communication of HTS provenance, analysis, and results
published pages: e3000099, ISSN: 1545-7885, DOI: 10.1371/journal.pbio.3000099
PLOS Biology 16/12 2019-09-06
2016 Michael W Bennett, Tim Manning, Brian Kelly, Noel Murphy, Paul Walsh, Tara Jane Browne, Fionnuala O\'Connell
Concordance in the Cloud- A Multidisciplinary Software Tool for Breast Core Biopsy Correlation
published pages: , ISSN: , DOI:
Laboratory Investigation.. : Nature Publishing Group, 2016 Vol. 96 2019-09-06
2016 Fionnuala O\'Connell, Tim Manning, Brian Kelly, Noel Murphy, Paul Walsh, Tara Jane Browne, Michael W Bennett
Pathology-Driven Cloud-Based Mutidisciplinary Team Meeting Software
published pages: , ISSN: , DOI:
Laboratory Investigation Vol. 96. 2019-09-06
2019 Cintia Cristina Palu , Marcelo Ribeiro-Alves, Yanxin Wu, Brendan Lawlor, Pavel V Baranov, Brian Kelly and Paul Walsh
Simplicity DiffExpress: a bespoke cloud-based interface for RNA-seq differential expression modeling and analysis
published pages: , ISSN: 0000-0000, DOI:
Front. Genet. - Bioinformatics and Computational Biology 2019-09-06

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The information about "SAGE-CARE" are provided by the European Opendata Portal: CORDIS opendata.

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