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Magic-5Medical Applications
in a GRID Infrastructure Connection
Ivan De Mitri*on behalf of MAGIC-5 collaboration
*Dipartimento di Fisica dell’Università di Lecce and INFN Lecce, [email protected]
HEALTHGRID 2005Oxford (UK), April 7-9 2005
The Magic-5 Project 2Ivan De Mitri
What is Magic-5?
INFN: Bari, Cagliari/Sassari, Catania/Palermo, Lecce, Napoli, Pisa, Torino/AlessandriaUniversities: Bari, Genova, Lecce, Napoli, Palermo, Piemonte Orientale, Pisa, SassariHospitals: Alessandria, Bari, (Lecce), Livorno, Milano, Napoli, Palermo, Pisa, Sassari, Torino, Udine
• Development of software tools for medical applications:
o 2D-3D Image Analysis
o Computer Assisted Diagnosis (CAD)
• Grid virtual organization (distributed databases and code)
INFN project (Medical Applications in a GRID Infrastructure Connection)
International Collaborations: Centro de Applicaciones Tecnologicas y Desarrollo Nuclear (CEADEN) ,
La Habana, Cuba
ALICE collaboration (CERN)
Agreement with BRACCO.
The Magic-5 Project 3Ivan De Mitri
Magic-5 chronologyCALMA (Computer Assisted Library for Mammography)
Study of image analysis algorithms for computer assisted diagnosis in mammographicscreening. Development of an annotated mammographic database.
GP-CALMA (GRID Platform CALMA)
Implementation of a GRID prototype for accessing the database (e.g. for remote diagnosis, training, …. )
MAGIC-5Refinement of Mammographic (2D) image analysis algorithms
Extended development of the GRID-ware and the GUI. (GPCALMA VO)
Study of 3D image analysis algorithms and setting up of a distributed lung CT imagesdatabase. (VO ANPI)
Apply GRID facilities to PET image analysis for an early diagnosy of Alzheimer Desease
The Magic-5 Project 4Ivan De Mitri
MAGIC-5 activity
The medical applications of the MAGIC-5 project cover at present three main fields:
1. breast cancer detection in mammograms
2. nodule detection in lung CT images
3. the diagnosis of the Alzheimer disease (AD)
…of course by using the GRID !
The Magic-5 Project 5Ivan De Mitri
GPCALMA CAD StationMassive Lesion Microcalcifications
• Image Selection• Image manipulation• Metadata insertion• Diagnosis insertion• CAD execution• Data Registration• Data Search
• InstallationsHospitals:
Valdese (TO)Palermo
INFN-Universities:Bari, Lecce, Napoli, Palermo,Torino, Sassari
The Magic-5 Project 6Ivan De Mitri
… more details
determination of ROIs (Region Of Interest)
analysis of several ROIs features
discriminationbetween normal and abnormal patterns
The Magic-5 Project 7Ivan De Mitri
The GRID approachThe example of mammographic screening
4 mammograms (about 60 MB) per examIn Italy: 6.8 millions of women in the 49-69 age range1 exam / (2 years), gives 3.4 M scans per year, ≈ 200 TB/yearIn Europe: about 1 PB/year
Therefore…1. … we are facing with an intrinsically distributed database (hospitals) with…2. … a huge amount of data3. … which must reside in a secure environment4. … and have to be accessed interactively and remotely5. … in order to share common datasets for algorithm comparison and validation6. … with the possibility to use also a meta-data catalogue
GRID!
The Magic-5 Project 8Ivan De Mitri
Data Collection Centre
Diagnostic Centre
Tele-diagnosis for breast cancer screeningData & MetaData Catalogue
1 - Data Collection
2 - Data Registration
3 - Run CADremotely
4 - Transfer Selected Data
5 - InteractiveDiagnosis
The Magic-5 Project 9Ivan De Mitri
….the prototype solutionsShare the images without (systematically) moving them (move code, not data!)
Access controlDistributed database managementComputational resources management
AliEn ( http://alien.cern.ch )
PROOF ( http://root.cern.ch )
One of the future prospects of our project is the migration from AliEn to the EGEE/gLitemiddleware, which might become a European standard, in the case it will provide more
sophisticated tools with respect to the present AliEn functionality.
The Magic-5 Project 10Ivan De Mitri
Patientcreation
Imageregistration
Catalogue query
High-Level Interface to Data Management Services
The Magic-5 Project 11Ivan De Mitri
The basic functionality is available and testedPrototype based on:
AliEn for Data ManagementPROOF for interactive remote analysis
Data are analysed where taken Demos at SC2003, HG2004, IEEE2004
Status of GPCALMA
The near future:set up local CAD station in more hospitalsoperate it locallykeep improving the algorithm performancesmove to EGEE/gLite as Grid Service Provider? Yes, but we need:
single-VO mode & easy installation/configuration - run in hospitalsreliable Data Management and Storage Element Servicesaccess GRID Services from GUI application
The Magic-5 Project 12Ivan De Mitri
Nodule detection in lung CT scansTwo initial steps have been already implemented:
1. automated extraction of the pulmonary parenchyma;
2. detection of nodule candidates based on a dot-enhancement filter
The Magic-5 Project 13Ivan De Mitri
A “sw developer” GUI
The Magic-5 Project 14Ivan De Mitri
Graphic User Interfaceslices browsingDICOMDIR decodingsplitting
Metadata management
The GUI prototype
3d - reconstruction of Vessel tree in the lung
Reg
ion
grow
ing
Alg
orith
mPr
elim
inar
y
3d visualization under study
The Magic-5 Project 15Ivan De Mitri
The case of the Alzheimer deseaseThe quantitative comparison, through the SPM (Statistical
Parametric Mapping) software, of PET images
from suspected AD patients with images of “normal” cases, allows powerful
suggestions to an early AD diagnosis.
The use of an integrated GRID environment for the
remote and distributedprocessing of the PET
images at a large scale, is strongly desirable.
This application is now being implemented in the MAGIC-5
GRID infrastructure.
The Magic-5 Project 16Ivan De Mitri
Summary …The AliEn server managing the VO services has been installed and configured. Moreover
some AlEn clients already in use.
The remote analysis of mammographic images successfully works, thanks to the PROOF facilities.
All blocks required for the tele-diagnosis and screening use cases are integrated into a working prototype system
Migration from AliEn to the EGEE/gLite middelware, which might become a European standard, in the case it will provide more sophisticated tools with respect to the present AliEn functionality.
Further improvements of the mammographic CAD are under study, showing promising results
New algorithms are being successfully developed in lung CT image analysis for early nodule detection
A new VO is now being implemented in order to manage the PET image analysis for an early AD diagnosis
… and Future plans