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GridR: An R-Based Grid-Enabled Tool for Data Analysis in ACGT Clinico-Genomics Trials

Dennis Wegener, Thierry Sengstag, Stelios Sfakianakis, Stefan Ruping, Anthony Assi
2007 Third IEEE International Conference on e-Science and Grid Computing (e-Science 2007)  
GMLE is currently being applied to astroinformatics for determining the shape of star streams in the Milky Way galaxy, and to particle physics in a search for theory-predicted but yet unobserved sub-atomic  ...  GMLE is designed to enable parallel and distributed executions on platforms ranging from supercomputers and high-performance homogeneous computing clusters to more heterogeneous Grid and Internet computing  ...  Nimrod/0 [18] is a tool which enables parameter estimation on grids and provides a web interface.  ... 
doi:10.1109/e-science.2007.41 dblp:conf/eScience/WegenerSSRA07 fatcat:olblq5synrfqti4ensmpmvaire

GridR: An R-based tool for scientific data analysis in grid environments

Dennis Wegener, Thierry Sengstag, Stelios Sfakianakis, Stefan Rüping, Anthony Assi
2009 Future generations computer systems  
The aim of GridR, which was initiated in the context of the EU project Advancing Clinico-Genomics Trials on Cancer (ACGT), is to provide a powerful framework for the analysis of clinico-genomic trials  ...  In this paper, we describe an analysis tool based on the statistical environment R, GridR, which allows using the collection of methodologies available as R packages in a grid environment.  ...  Acknowledgments The authors gratefully acknowledge the financial support of the European Commission for the Project ACGT, FP6/2004/IST-026996.  ... 
doi:10.1016/j.future.2008.09.004 fatcat:2ba72wlcmrb4bh25b2rndsyyo4

Building a System for Advancing Clinico-Genomic Trials on Cancer

Stelios Sfakianakis, Norbert M. Graf, Alexander Hoppe, Stefan Rüping, Dennis Wegener, Lefteris Koumakis, George Zacharioudakis
2009 Professional Practice in Artificial Intelligence  
The analysis of clinico-genomic data poses complex computational problems.  ...  In the project ACGT, a grid-based software system to support clinicians and bio-statisticians in their daily work is being developed.  ...  Acknowledgments: The authors wish to thank the ACGT consortium for their contributions and various ideas on which the ACGT project was developed.  ... 
dblp:conf/ifip12/SfakianakisGHRWKZ09 fatcat:akpvrowf65fq5juyzxtbnegpq4

ACGT: advancing clinico-genomic trials on cancer - four years of experience

Luis Martin, Alberto Anguita, Norbert Graf, Manolis Tsiknakis, Mathias Brochhausen, Stefan Rüping, Anca Bucur, Stelios Sfakianakis, Thierry Sengstag, Francesca Buffa, Holger Stenzhorn
2011 Studies in Health Technology and Informatics  
Advancing Clinico-Genomic Trials (ACGT) was a European Commission funded Integrated Project that aimed at providing tools and methods to enhance the efficiency of clinical trials in the -omics era.  ...  An urgent need exists to access data in a uniform manner, to share information among different clinical and research centers, and to store data in secure repositories assuring the privacy of patients.  ...  The R language was adopted as the prime tool for carrying out statistical analysis of the data.  ... 
pmid:21893844 fatcat:m5qggzte4vhvjbdxo44ie3axwu

The ACGT project in retrospect: Lessons learned and future outlook

Anca Bucur, Stefan Ruping, Thierry Sengstag, Stelios Sfakianakis, Manolis Tsiknakis, Dennis Wegener
2011 Procedia Computer Science  
The objective of the ACGT (Advancing Clinico-Genomic Trials on Cancer: Open Grid Services for improving Medical Knowledge Discovery, project that has recently concluded successfully was  ...  In this paper we describe the way the ACGT consortium has approached important challenges in the design and the execution of the clinical trials such as the issues of data integration, semantics based  ...  Acknowledgements The authors gratefully acknowledge the financial support of the European Commission for the Project ACGT, FP6/2004/IST-026996.  ... 
doi:10.1016/j.procs.2011.04.119 fatcat:ls5emmpmrrfwnhnkscbpazorge

Towards an environment for data mining based analysis processes in bioinformatics and personalized medicine

Dennis Wegener, Simona Rossi, Francesca Buffa, Mauro Delorenzi, Stefan Rüping
2013 Network Modeling Analysis in Health Informatics and Bioinformatics  
In this paper, we present the challenges for data mining based analysis in bio-and medical informatics and our approach towards a data mining environment addressing these requirements in the p-medicine  ...  To serve these new and diverse needs, bioinformatics and data mining are teaming up to generate tools and procedures for prediction of disease recurrence and progression, response to treatment, as well  ...  The GridR service (Bucur et al. 2011 ) allows for reusing R script-based data mining components.  ... 
doi:10.1007/s13721-013-0022-1 dblp:journals/netmahib/WegenerRBDR13 fatcat:xnr6jsiko5ff5px2mxbk7ckwfy