Post on 02-Jan-2016
transcript
cceHUBAn Environment for Collaborative Cancer Research
Ann Christine CatlinCCE Annual Retreat
May 26, 2010
clinical data observational & scientific data
decision supportintegrative & predictive tools
Sample Collection
Clinical Patient
Data
Laboratory Analysis
Visual Analytics
Predictive Modeling
Data &
Tools
Sample Collection
Clinical Patient
Data
Predictive Modeling
Laboratory Analysis
Visual Analytics
CCE Research WorkflowSharing Data, Tools, Analysis & Knowledge
cceHUBBuilding “Community” for Cancer Care Engineering Research
cceHUB development begins
cceHUB goes online
what does cceHUB offer today ?
June 2008
20
April 2009
2
May 2010
26
Clinical DataStatistics on cceHUB Sample and Patient Tracking
DatabaseTotal
PatientsDiagnosis
% DataLifestyle% Data
Cancer/Polyp Patients
2 / 3 blood draws
Treatment% Data
patients 171 99% 70% 25 / 66 18 / 3 33%
First patient CCE001 enrolled on April 2, 2009Most recent patient CCE203 enrolled on May 25, 2010Maximum patients enrolled on a single day September 23, 2009 = 9Downtime April 2009 – May 2010 during enrollment transfer
cceHUB = 4 hoursOncore = 21 days
DatabaseTotal
SamplesTotal
AliquotsDistributed IUSCC Labs
Transferred Purdue
Distributed Purdue Labs
samples 192 3748185 x 2 Klaunig 185 x 1 Xu 169
53 x 2 Raftery70 x 1 Teegarden 65 x 1 Adamec
Clinical Data ContributionData Entry and Processing: Support for the Clinical Workflow
Clinical Data ViewsData View & Search: Support for Clinical Data Exploration
Laboratory DatasetsStatistics on cceHUB Dataset Upload and Tracking
RepositoryAdamec Global
Proteomics
KlaunigComet Assay
KlaunigAnti-
Oxidant
Xu Lipidomics
Raftery NMR
Metabolomics
datasets 65 mzXML 1 spreadsheet1 CSV
1 spreadsheet1 CSV
1 spreadsheet1 CSV
1 spreadsheet1 CSV
samples 65 55 119 46 53
aliquots 92 106
First dataset uploaded from Xu Laboratory January 5, 2010Most recent dataset uploaded from Adamec Laboratory April 12, 2010Largest file uploaded 190900067bytes April 9, 2010 < 4 seconds transfer time
Percent files tracked to patient clinical data 100%Percent files tracked to instrument, laboratory, preparation protocol, samples 100%Percent files available from repository to view, search, process, analyze 100%
Data Repository UploadData Annotation and Tracking: Support for the Laboratory Workflow
Data Repository ViewsData View & Search: Support for Laboratory Data Exploration
Community ViewingStatistics on cceHUB Data View and Search
April - May2010
Clinical Data Viewer
Data RepositoryViewer
Sample Acquisition Workflow
Visits 12,948 3,180 2,577
Modeling ToolscceHUB Tools: Support for Modeling Workflow
Modeling ToolscceHUB Tools: Decision Support for Physicians
Data Analysis SharingAnalyzing, Browsing & Exploring the Data
Using cceHUBWho’s at the Website?
OneYear
Web Hits Visitors Visits
Core Users Core Tool Users
4/09-4/10 1,550,658 10,443 29,855 2540 62
OneYear
Core Users Core Tool Users
4/09-4/10 2540 62
USA 42% 100%
Asia 28%
Europe 21%
Other 9%
Education 90% 86%
Industry 4% 5%
Government 5% 5%
Using cceHUBWho’s Using our Website the Most?
Population Models
Integrative Models
Analysis Models
Clinical Team
ToolDeveloper
Visualization Tools
hub login easherer lin43 elcinicten dcregar baaraa apattath
# logins 294 103 94 159 333 37
cceHUB wall-time
12093hours
2329 hours
5023 hours
1156 hours
4660 hours
499hours
cceHUB interaction
3833 hours
39 hours
63 hours
1032 hours
214 hours
246 hours
workspace wall-time
11985 hours
2329 hours
5023 hours
4408 hours
499hours
workspace CPU time
1993 hours
89 hours
1737 hours
tools used 5 3 1 5 2
acc # logins = 1409tools used = 12workspace wall-time = 7218 hours
HUBzero-PoweredLeveraging a Powerful Research Environment
• User Groupsauthorization, secure data, access control, specialized analysis tools
• Community-Shared Resources publications, teaching materials, web-based contribution, linkage, tags, search
• Portal to Toolsshared development, execution power, analysis & visualization in your browser
• Community feedbackratings, usage statistics, wikis, blogs
• Workflowsserve all research groups, cover complete biological data life-
cycle
• Massive Datasetsannotate, upload, link to clinical date, archive, backup, share
• Clinical Datalink to hospital database, shared across communitycontribute, view, search
• Knowledgeshare across community data, workflows, models, results
• Analysis Toolsdata access, replay
Data SupportcceHUB Brings New Data Technology to the HUB
Genomics Project with Notre Dame
Genomics Project with Notre Dame
cceHUB plus
We have the technology!
Prostate Cancer Project with
Purdue Center for Cancer Research
Prostate Cancer Project with
Purdue Center for Cancer Research
The Next PhaseCollaborative Knowledge Acquisition with Shared Data and Shared Analysis
Tissue Project with
MD Anderson
Tissue Project with
MD Anderson
Thymoma Project with
Yale University Medical School
Thymoma Project with
Yale University Medical School
The Next PhaseWhat Do You Want cceHUB To Do For You ?
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