Introduction

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NA-MIC National Alliance for Medical Image Computing http://na-mic.org Introduction Ron Kikinis

description

Introduction. Ron Kikinis. Logistics. Wireless Network available Presenters: Please upload to the wiki AHM: Thursday morning: Present Thursday afternoon: Future Friday morning: EAB Project week: Wednesday through Friday. Bill@Murphy's Bar & Grill. 160 South Main St. Phone: 801-359-7271 - PowerPoint PPT Presentation

Transcript of Introduction

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NA-MICNational Alliance for Medical Image Computing http://na-mic.org

Introduction

Ron Kikinis

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National Alliance for Medical Image Computing http://na-mic.org

Logistics

• Wireless Network available• Presenters: Please upload to the wiki• AHM:

– Thursday morning: Present– Thursday afternoon: Future– Friday morning: EAB

• Project week: Wednesday through Friday

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National Alliance for Medical Image Computing http://na-mic.org

Bill@Murphy's Bar & Grill 160 South Main St. Phone: 801-359-72716:00pm-9:00pm: Thursday Evening

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National Alliance for Medical Image Computing http://na-mic.org

Science

• Year 3: organized around four themes– NA-MIC Kit– Structural Analysis– DTI– fMRI

• Reports this morning

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National Alliance for Medical Image Computing http://na-mic.org

NAMIC Kit Update

• Slicer 3– Significant progress– Modules now being

contributed

• Foundational Software– KWWidgets – CPack– DART, CMake– VTK, ITK– BIRN, InsightJournal

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Structural Analysis Update

• New methods segmentation & shape leading to tools

• Slicer integration• MGH Freesurfer• Coherent, joint effort across

groups and cores for shape

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National Alliance for Medical Image Computing http://na-mic.org

DWI/DTI Analysis

• Algorithms– Low-level

• Filtering and estimation• Segmentation

– Higher-level• Tracts/paths• Altases

• Software– Slicer/Slicer3

• Clinical results

Expert Labels Clustered Data

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National Alliance for Medical Image Computing http://na-mic.org

NA-MIC Structure

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National Alliance for Medical Image Computing http://na-mic.org

Core 1:

• Ross is Core 1 PI

• Polina is now site-PI for MIT, Eric serves as senior advisor

• Guido is moving to Utah

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National Alliance for Medical Image Computing http://na-mic.org

Core 2:

• Will replaces Bill as Core 2 PI,

• Jim takes over the site PI function

• Slicer3 beta is released

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Core 3:

• Current DBP's– NA-MIC funding for current DBP’s ends 07-31-

2007. – No follow-up grant applications until now!!!

• New DBP's will use NA-MIC funding to transition into NA-MIC kit and develop application portfolio – Harvard – UNC – JHU/Queens – UNM

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Velo-Cardio-Facial Syndrome (VCFS) as a Genetic Model for Schizophrenia.

PRINCIPAL INVESTIGATOR: Marek Kubicki, MD, PhDINVESTIGATORS:Martha Shenton, PhDZora Kikinis, PhDSylvain Bouix, PhDMarc Niethammer, PhDRESEARCH ASSISTANT:Doug Markant, BA

BACKGROUND:

• VCFS is a rare genetic syndrome (single copies of 30-45 genes on chromosome 22 are missing)

• 30% of patients with VCFS develop schizophrenia

AIMS:

• To characterize anatomical similarities and dissimilarities between VCFS and Schizophrenia

• To find “schizophrenia” genes

DATA:

• DTI, MRI, haplotypes, neuropsychology

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UNC Autism Study

Heather Cody Hazlett, PhD (Co-PI Joseph Piven, MD) UNC Chapel Hill, Department of Psychiatry & the Neurodevelopmental Disorders Research Center

Data: sMRI, DTI, behavioral /clinical

Group age 2 age 4 Autism 56 28 DevDelay 10 6 TypDev 18 8

Possible projects for NA-MIC:

(1) Substructure segmentation – automate existing protocols

(2) Cortical thickness – localized analysis, longitudinal

(3) DTI atlas – regional & localized analysis

(4) Shape analysis – automated, longitudinal

Longitudinal MRI study of early brain development in neuropsychiatric disorder:

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JHU

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The MIND Institute / UNMThe Analysis of Brain Lesions in Neuropsychiatric Systemic Lupus Erythematosis

INVESTIGATORS:H. Jeremy BockholtCharles Gasparovic, Ph.D. CONSULTANTS:Vincent Magnotta, Ph.D.Vince Calhoun, Ph.D.Dominic Meier, Ph.D.PROGRAMMER:Sumner Williams, M.S.

BACKGROUND:• NPSLE is an autoimmune disorder that

causes neurological and psychiatric complications

• Afflicted patients have distinct white matter lesions that vary over time

• To understand the etiology of brain lesions in NPSLE, accurate measurement of lesion location, size, and time course must be achieved

AIMS:

• Evaluate existing tools and develop new tools useing the NA-MIC kit for time series analysis of brain lesions found in NPSLE

DATA:

• MRI, DTI, perfusion, transcranial ultrasound, echocardiography, and neuropsychology

Baseline year 1 year 2SLE 30 15 15

NPSLE 30 15 1530 0 0

Lupus

Healthy Normal Volunteers

Subject Type

Data collected under R01-NS35708-04

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Cores 4-7

• Web: move to new infrastructure

• Training Core: Outreach events for 2007: Suggestions, Requests?

• Leadership Core: – Steve Wong has moved to other

activities. – Rachana Manandhar joins the

administration team.

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Collaboration grants:

• PAR's have been reissued. • NIH removed the restriction on prior

collaborators. • Electronic submission required. • PAR-07-249 (R01)

PAR-07-250 (R21) • Iowa funded to do FEM Mesh Generation • Several other applications are being

submitted or are pending

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Strategic Planning

• Competitive renewal is looming (if we are allowed to submit)

• We need to identify NIH institutes who might co-sponsor NA-MICs competitive renewal: NIBIB, NLM, NCRR, NIMH, NCI….

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Define NA-MIC’s Strength

• Mark Ellisman: What is our “Moonshot”?– We need a story that will be understood by

people on the outside, including NIH and congress

• Who are we relative to: – other software efforts such as SPM, Mathlab,

FSL, LONI, Freesurfer, SCI, Paraview, BIRN etc.

– other NCBC’s

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What is our offering?

• Algorithm researchers: Toolkits and developers environment

• Biomedical Engineers: we need scripting capabilities

• Application scientists: we need turn-key solutions

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National Alliance for Medical Image Computing http://na-mic.org

To-Do List for 2007

• Your NA-MIC funding is intended for NA-MIC relevant work

• Use and improve the NA-MIC kit• Move to Slicer 3!• Cores 1 and 2 should work with the

current DBP’s to exploit the NA-MIC kit:– Use-Scenarios – “Portable” Solutions– Collaboration Grants

• Identify projects with the new DBP’s

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Project Week: June 25-29, MIT

• Computer Scientists: Work on your source code using the NA-MIC kit– Produce Modules

• DBP’s: Work on your data using the NA-MIC kit– Produce Procedure Manuals

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Enjoy !


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