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SAGE-CARE

SemAntically integrating Genomics with Electronic health records for Cancer CARE

Total Cost €

EC-Contrib. €

Partnership

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Outcomes and
results

SAGE-CARE project word cloud

Explore the words cloud of the SAGE-CARE project. It provides you a very rough idea of what is the project "SAGE-CARE" about.

treatment abcb5 indicators clinical academic diagnosis associations create platform clinicians distributed ehrs records variability patients vast gene medicine thereby genomic integrating personalised informatics hence published cdk4 discovered inter sectors rs2301641 highlighted sequences semantic engaged cancer melanoma repositories health snp framework malignant alia innovative queries hpc active subject holistic reasoned bases interlinking phenotype electronic query scalable strategies function geno experts

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) 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.	DE (DARMSTADT)	coordinator	162˙000.00
2	NSILICO LIFE SCIENCE LIMITED NSILICO LIFE SCIENCE LIMITED Organization address address: GRANGE ERIN LODGE GRANGE ROAD city: DOUGLAS postcode: T12 website: www.nsilico.com contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	IE (DOUGLAS)	participant	220˙500.00
3	GIOUMPITEK MELETI SCHEDIASMOS YLOPOIISI KAI POLISI ERGON PLIROFORIKIS ETAIREIA PERIORISMENIS EFTHYNIS GIOUMPITEK MELETI SCHEDIASMOS YLOPOIISI KAI POLISI ERGON PLIROFORIKIS ETAIREIA PERIORISMENIS EFTHYNIS Organization address address: MITHRIDATOU 36-38 city: ATHINA postcode: 11632 website: www.ubitech.eu contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	EL (ATHINA)	participant	40˙500.00
4	UNIVERSITA DEGLI STUDI DI NAPOLI FEDERICO II UNIVERSITA DEGLI STUDI DI NAPOLI FEDERICO II Organization address address: CORSO UMBERTO I, 40 city: NAPOLI postcode: 80138 website: www.unina.it contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	IT (NAPOLI)	participant	27˙000.00
5	THE UNIVERSITY OF EDINBURGH THE UNIVERSITY OF EDINBURGH Organization address address: OLD COLLEGE, SOUTH BRIDGE city: EDINBURGH postcode: EH8 9YL website: www.ed.ac.uk contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	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

List of publications.
year	authors and title	journal	last update
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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