MagicMagic-55 Medical Applications in a GRID Infrastructure Connection
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Magic-5
Medical Applications
in a GRID Infrastructure Connection
Ivan De Mitri*
on behalf of MAGIC-5 collaboration
*Dipartimento di Fisica dell’Università di Lecce and
Istituto Nazionale di Fisica Nucleare, Sez. di Lecce
ivan.demitri@le.infn.it
TCN CAE 2005
International Conference on CAE and Computational Technologies for Industry
Lecce, October 2005
What is Magic-5?
INFN project (Medical Applications in a GRID Infrastructure Connection)
• 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: Bari, Cagliari/Sassari, Catania/Palermo, Lecce, Napoli, Pisa, Torino/Alessandria
Universities: Bari, Genova, Lecce, Napoli, Palermo, Piemonte Orientale, Pisa, Sassari
Hospitals: Alessandria, Bari, (Lecce), Livorno, Milano, Napoli, Palermo, Pisa, Sassari, Torino, Udine
International Collaborations: Centro de Applicaciones Tecnologicas y Desarrollo Nuclear (CEADEN) ,
La Habana, Cuba
ALICE collaboration (CERN)
Agreement with BRACCO.
2 I. De Mitri - Magic-5
Magic-5 chronology CALMA (Computer Assisted Library for Mammography) Study of image analysis algorithms for computer assisted diagnosis in mammographic screening. 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-5 Refinement 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 images database. (VO ANPI) Apply GRID facilities to PET image analysis for an early diagnosy of Alzheimer Desease 3 I. De Mitri - Magic-5
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 ! 4 I. De Mitri - Magic-5
GPCALMA CAD Station
Massive Lesion Microcalcifications • Image Selection
• Image manipulation
• Metadata insertion
• Diagnosis insertion
• CAD execution
• Data Registration
• Data Search
• Installations
Hospitals:
Torino
Palermo
(Lecce)
INFN-Universities:
Bari, Lecce, Napoli,
Palermo,Torino, Sassari
5 I. De Mitri - Magic-5
… more details 9 determination of ROIs (Region Of Interest) 9 analysis of several ROIs features 9 discrimination between normal and abnormal patterns 6 I. De Mitri - Magic-5
The GRID approach
The example of mammographic screening
– 4 mammograms (about 60 MB) per exam
– In Italy: 6.8 millions of women in the 49-69 age range
– 1 exam / (2 years), gives 3.4 M scans per year, ≈ 200 TB/year
– In Europe: about 1 PB/year
Therefore…
1. … we are facing with an intrinsically distributed database (hospitals) with…
2. … a huge amount of data
3. … which must reside in a secure environment
4. … and have to be accessed interactively and remotely
5. … in order to share common datasets for algorithm comparison and validation
6. … with the possibility to use also a meta-data catalogue
GRID!
7 I. De Mitri - Magic-5Tele-diagnosis for breast cancer screening
Data Collection Centre Data & MetaData Catalogue
Diagnostic Centre
1 - Data 4 - Transfer
Collection Selected Data
3 - Run CAD 5 - Interactive
remotely Diagnosis
2 - Data Registration
8 I. De Mitri - Magic-5….the prototype solutions
Share the images without (systematically) moving them (move code, not data!)
PROOF ( http://root.cern.ch )
Access control
Distributed database management
Computational resources management
AliEn ( http://alien.cern.ch )
One of the future prospects of our project is the migration from AliEn to the EGEE/gLite
middleware, which might become a European standard, in the case it will provide more
sophisticated tools with respect to the present AliEn functionality.
9 I. De Mitri - Magic-5High-Level Interface to Data
Management Services
Catalogue query
Patient
creation
Image
registration
10 I. De Mitri - Magic-5Status of GPCALMA
(the mammographic CAD)
The basic functionality is available and tested
Prototype based on:
AliEn for Data Management
PROOF for interactive remote analysis
Data are analysed where taken
Demos at SC2003, HG2004, IEEE2004
The near future:
¾ set up local CAD station in more hospitals
¾ operate it locally
¾ keep improving the algorithm performances
¾ move to EGEE/gLite as Grid Service Provider?
¾ Yes, but we need:
¾ single-VO mode & easy installation/configuration - run in hospitals
¾ reliable Data Management and Storage Element Services
¾ access GRID Services from GUI application
11 I. De Mitri - Magic-5Nodule detection in lung CT
scans
Two initial steps have been already implemented:
1. automated extraction of the pulmonary parenchyma;
2. detection of nodule candidates based on a dot-enhancement filter
12 I. De Mitri - Magic-5A “sw developer” GUI 13 I. De Mitri - Magic-5
The GUI prototype
Graphic User Interface
slices browsing
DICOMDIR
decoding
splitting
Metadata management
Region growing
Preliminary
Algorithm
3d - reconstruction of 3d visualization under study
Vessel tree in the lung
14 I. De Mitri - Magic-5The case of the Alzheimer
desease
The 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 distributed
processing of the PET
images at a large scale, is
strongly desirable.
This application is now being
implemented in the MAGIC-5
GRID infrastructure.
15 I. De Mitri - Magic-5Summary …
9 The AliEn server managing the VO services has been installed and configured. Moreover
some AliEn clients already in use.
9 The remote analysis of mammographic images successfully works, thanks to the PROOF
facilities.
9 All blocks required for the tele-diagnosis and screening use cases are integrated into a
working prototype system
… and Future plans
9 Further improvements of the mammographic CAD are under study, showing promising
results
9 New algorithms are being successfully developed in lung CT image analysis for early
nodule detection
9A new VO is now being implemented in order to manage the PET image analysis for an
early AD diagnosis
Industrial applications
16 I. De Mitri - Magic-517 I. De Mitri - Magic-5
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