slide1
Download
Skip this Video
Download Presentation
cceHUB Sharing , Exploring and Analyzing Data An Environment for Collaborative Cancer Research

Loading in 2 Seconds...

play fullscreen
1 / 24

cceHUB Sharing , Exploring and Analyzing Data An Environment for Collaborative Cancer Research - PowerPoint PPT Presentation


  • 97 Views
  • Uploaded on

clinical data. observational & scientific data. computation & visualization. decision support. cceHUB Sharing , Exploring and Analyzing Data An Environment for Collaborative Cancer Research. Ann Christine Catlin HUBbub 04-06-2011.

loader
I am the owner, or an agent authorized to act on behalf of the owner, of the copyrighted work described.
capcha
Download Presentation

PowerPoint Slideshow about ' cceHUB Sharing , Exploring and Analyzing Data An Environment for Collaborative Cancer Research' - mead


An Image/Link below is provided (as is) to download presentation

Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author.While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server.


- - - - - - - - - - - - - - - - - - - - - - - - - - E N D - - - - - - - - - - - - - - - - - - - - - - - - - -
Presentation Transcript
slide1

clinical data

observational &

scientific data

computation &

visualization

decision support

cceHUB

Sharing , Exploring and Analyzing Data

An Environment for Collaborative Cancer Research

Ann Christine Catlin

HUBbub

04-06-2011

slide2

Master plan for the Cancer Care Engineering Colorectal Cancer Study

3. Predictive Modeling

Data Synthesis & Analysis

Knowledge Acquisition

Zhang Group Integrative ModelsPurdue

ShererPopulation-based ModelsVA Hospital

ChenBiological Network ModelsIUPUI

  • Blood Sample Acquisition
  • Sample Processing, Annotation, Distribution
  • Clinical Patient Data Collection
  • IU Simon Cancer Center

2. OMIC Laboratory Analysis

Data & Knowledge Acquisition

XuLab LipidomicsIUSchool of Medicine

Raftery Lab MetabolomicsPurdue

Regnier Lab GlycoproteomicsPurdue

Bindley LabGlobal ProteomicsPurdue

Teegarden Lab Vitamin DPurdue

Klaunig Lab Oxidative StressIU School of Medicine

4. Visual Analytics

Data Exploration & Analysis

Knowledge Acquisition

EbertGroupPURVACPurdue

  • Iterative Feedback & Validation
  • CCEResearchCommunity

molecular signatures for colorectal cancer that predict susceptibility, treatment response and ultimate treatment outcome

slide3

Sharing data, tools, analysis & knowledge

statistical & modeling tools

sample collection

lab analysis pipelines

clinical data collection

lab data collection

slide4

A single portal : sharing data, tools, analysis & knowledge

statistical & modeling tools

sample collection

lab analysis pipelines

clinical data collection

lab data collection

cancer research groups worldwide

slide5

A single portal: sharing data, tools, analysis & knowledge

a web environment with that supports

data flow

data sharing

data analysis

for the collaborating cancer research groups of CCE

slide6

Support for clinical data

Clinical Research Team and Physicians

clinical data

Data contribution from clinical team

Patients Diagnosis, Treatments, Surgeries, Lifestyle, Diet, Demographics, …

Samples Collection, Processing, Protocols, Distribution, Tracking, …

Data Workflow

laboratory analysis

Automatic Metadata Processing

Sample Data

Patient Data

Clinical Metadata

predictive modeling tools

cceHUB

Database

slide7

Support for clinical data

Clinical Research Team Physicians

  • nightly pull from hospital e-records
  • patient data collection
  • sample tracking
  • data annotation
  • clinical data archive
  • blood sample bio-repository
  • patient and sample linkage
  • data viewing
  • data search, filter & explore

Clinical

Data Flow

clinical data

Data contribution from clinical team

Patients Diagnosis, Treatments, Surgeries, Lifestyle, Diet, Demographics, …

Samples Collection, Processing, Protocols, Distribution, Tracking, …

Data Flow

laboratory analysis

Automatic Metadata Processing

Sample Data

Patient Data

Clinical Metadata

predictive modeling tools

cceHUB

Database

slide10

Clinical data : some stats

First patient CCE001 enrolled on 04/02/2009 (the day cceHUB went live)

Most recent patient CC285 enrolled on 02/15/2011

Most recent data : neoadjuvant chemoradiation treatment for patient CCE156 on 04/02/2011

Maximum patients enrolled on a single day 09/23/2009 = 9

# web-forms to track patient and sample data flow : 12

# accesses to clinical data viewer 04/02/2009 – 05/25/2010 : > 15,000

slide11

Support for laboratory data

Lab Workflow Knowledge

clinical data

Sample-Dataset tracking

Massive instrument- generated datasets

Research Labs

Metabolomics, Lipidomics, Global Proteomics, Glycoproteomics, Vitamin D, Oxidative Stress, Genomics

laboratory analysis

Data Upload

Clinical Data

Lab Knowledge Base

Repository Metadata

predictive modeling tools

cceHUB

Database

cceHUB

Lab Instrument Data Repository

slide12

”knowledge base” resources

  • (protocols, sample preparation, instruments, standards, file formats, analysis)
  • annotation for lab data files
  • lab data files tracked to samples/patients
  • data files upload with provenance
  • metadata processing
  • lab data collections
  • data view & explore
  • data access for analysis tools

Laboratory

Data Flow

Support for laboratory data

Lab Workflow Knowledge

clinical data

Sample-Dataset tracking

Massive instrument- generated datasets

Research Labs

Metabolomics, Lipidomics, Global Proteomics, Glycoproteomics, Vitamin D, Oxidative Stress, Genomics

laboratory analysis

Data Upload

Clinical Data

Lab Knowledge Base

Repository Metadata

predictive modeling tools

cceHUB

Database

cceHUB

Lab Instrument Data Repository

slide18

Support for modeling and analysis

GCxGC MS Classification and Alignment

clinical data

LC-MS Discovery Pipeline: Spectrum Deconvolution

Data to Tools

Data from Tools

laboratory analysis

Clinical Data

Lab Knowledge Base

Repository Metadata

Modeling Groups Visual Analytics

Data Synthesis & Analysis Knowledge Acquisition

predictive modeling tools

cceHUB

Database

cceHUB

Lab Instrument Data Repository

slide24

Our technology extends to other cancer research workflows

Using the HUB cyber infrastructure

and cceHUB data technology

to further collaborative

Cancer Care Engineering Research

ad