Literature DB >> 20371412

A virtual laboratory for medical image analysis.

Sílvia D Olabarriaga1, Tristan Glatard, Piter T de Boer.   

Abstract

This paper presents the design, implementation, and usage of a virtual laboratory for medical image analysis. It is fully based on the Dutch grid, which is part of the Enabling Grids for E-sciencE (EGEE) production infrastructure and driven by the gLite middleware. The adopted service-oriented architecture enables decoupling the user-friendly clients running on the user's workstation from the complexity of the grid applications and infrastructure. Data are stored on grid resources and can be browsed/viewed interactively by the user with the Virtual Resource Browser (VBrowser). Data analysis pipelines are described as Scufl workflows and enacted on the grid infrastructure transparently using the MOTEUR workflow management system. VBrowser plug-ins allow for easy experiment monitoring and error detection. Because of the strict compliance to the grid authentication model, all operations are performed on behalf of the user, ensuring basic security and facilitating collaboration across organizations. The system has been operational and in daily use for eight months (December 2008), with six users, leading to the submission of 9000 jobs/month in average and the production of several terabytes of data.

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Year:  2010        PMID: 20371412     DOI: 10.1109/TITB.2010.2046742

Source DB:  PubMed          Journal:  IEEE Trans Inf Technol Biomed        ISSN: 1089-7771


  7 in total

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Authors:  Jeroen K J Van Houdt; Beata Anna Nowakowska; Sérgio B Sousa; Barbera D C van Schaik; Eve Seuntjens; Nelson Avonce; Alejandro Sifrim; Omar A Abdul-Rahman; Marie-José H van den Boogaard; Armand Bottani; Marco Castori; Valérie Cormier-Daire; Matthew A Deardorff; Isabel Filges; Alan Fryer; Jean-Pierre Fryns; Simone Gana; Livia Garavelli; Gabriele Gillessen-Kaesbach; Bryan D Hall; Denise Horn; Danny Huylebroeck; Jakub Klapecki; Malgorzata Krajewska-Walasek; Alma Kuechler; Matthew A Lines; Saskia Maas; Kay D Macdermot; Shane McKee; Alex Magee; Stella A de Man; Yves Moreau; Fanny Morice-Picard; Ewa Obersztyn; Jacek Pilch; Elizabeth Rosser; Nora Shannon; Irene Stolte-Dijkstra; Patrick Van Dijck; Catheline Vilain; Annick Vogels; Emma Wakeling; Dagmar Wieczorek; Louise Wilson; Orsetta Zuffardi; Antoine H C van Kampen; Koenraad Devriendt; Raoul Hennekam; Joris Robert Vermeesch
Journal:  Nat Genet       Date:  2012-02-26       Impact factor: 38.330

2.  Persistent and reversible consequences of combat stress on the mesofrontal circuit and cognition.

Authors:  Guido A van Wingen; Elbert Geuze; Matthan W A Caan; Tamás Kozicz; Silvia D Olabarriaga; Damiaan Denys; Eric Vermetten; Guillén Fernández
Journal:  Proc Natl Acad Sci U S A       Date:  2012-09-04       Impact factor: 11.205

3.  Decreased uncinate fasciculus tract integrity in male and female patients with PTSD: a diffusion tensor imaging study.

Authors:  Saskia B J Koch; Mirjam van Zuiden; Laura Nawijn; Jessie L Frijling; Dick J Veltman; Miranda Olff
Journal:  J Psychiatry Neurosci       Date:  2017-09       Impact factor: 6.186

4.  Polyunsaturated fatty acid concentration predicts myelin integrity in early-phase psychosis.

Authors:  Bart D Peters; Marise W J Machielsen; Wendela P Hoen; Matthan W A Caan; Anil K Malhotra; Philip R Szeszko; Marinus Duran; Silvia D Olabarriaga; Lieuwe de Haan
Journal:  Schizophr Bull       Date:  2012-08-27       Impact factor: 9.306

5.  The perfect neuroimaging-genetics-computation storm: collision of petabytes of data, millions of hardware devices and thousands of software tools.

Authors:  Ivo D Dinov; Petros Petrosyan; Zhizhong Liu; Paul Eggert; Alen Zamanyan; Federica Torri; Fabio Macciardi; Sam Hobel; Seok Woo Moon; Young Hee Sung; Zhiguo Jiang; Jennifer Labus; Florian Kurth; Cody Ashe-McNalley; Emeran Mayer; Paul M Vespa; John D Van Horn; Arthur W Toga
Journal:  Brain Imaging Behav       Date:  2014-06       Impact factor: 3.978

6.  Initial steps towards a production platform for DNA sequence analysis on the grid.

Authors:  Angela C M Luyf; Barbera D C van Schaik; Michel de Vries; Frank Baas; Antoine H C van Kampen; Silvia D Olabarriaga
Journal:  BMC Bioinformatics       Date:  2010-12-14       Impact factor: 3.169

7.  CBRAIN: a web-based, distributed computing platform for collaborative neuroimaging research.

Authors:  Tarek Sherif; Pierre Rioux; Marc-Etienne Rousseau; Nicolas Kassis; Natacha Beck; Reza Adalat; Samir Das; Tristan Glatard; Alan C Evans
Journal:  Front Neuroinform       Date:  2014-05-21       Impact factor: 4.081

  7 in total

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