Biospecimens Managed with caTissue = specimens available to internal researchers, but not on the grid; = specimens in caTissue, no information if they are grid-accessible = specimens on the grid; As of Feb 16, 2010 (pending follow up with ~10 more Grid instances)
caTissue Suite v1.2 Web-based application for biospecimen information management Professional approach to software design Open source / Open access (Free) Iterative development cycle (Always improving) Flexible to meet the needs of varying biobank environments New features include performance and usability enhancements Multiple sources of electronic and human support
caTissue Suite End Users Targeted Users: – Biospecimen resource staff who want to track and store data about their biospecimen collection, inventory, and distribution. – Scientists who want to search for biospecimens and associated data for their translational research projects. Core Functions / Modules – Administration: Create and edit users, protocols, and storage systems associated with a biospecimen inventory. – Biospecimen: Create and edit data concerning participants and their corresponding biospecimens. – Query: Identify biospecimens and their data based upon one or more selection criteria.
Types of Data Tracked by caTissue Suite PARTICIPANT (Patient) PARTICIPANT PROTOCOL REGISTRATION (PPI) (Study Registration) COLLECTION PROTOCOL (CP) (Protocol) SPECIMEN COLLECTION GROUP (SCG) SPECIMEN DISTRIBUTION PROTOCOL (DP) (Study) Aliquot Derivative Clinical Data Pathology Data and Reports QA and Availability Data
Supporting Data Entry Workflows for Generic Biospecimen Banking Consent Patient Register to Protocol Provide Diagnosis Provide Operative Date Collect Specimen Receive Specimen Store Specimen TIME CRAPathologistBiobank Pre-operative consent is obtained and operative frozen tissue specimens (tumor and non-malignant) are collected from surgical discards.
Support for ‘High-Throughput’ Banking of Cells and Biofluids Collect Whole Blood Plasma WBC Aliquot STORE A tube of whole blood is collected which is then processed and aliquoted into individual components, as per a unique SOP for that protocol.
Support for Import and De-Identification of Surgical Pathology Reports and Block Archive Path Report LoadingSearch for cases based on path report Retrieve requested blocks from pathology and accession as new specimens Cut slides and distribute Pathology report texts that are loaded into the system are the basis for a search and block request. Blocks are requested, deidentified, sectioned, and distributed for a study.
User RolesRole Privileges + Operation of Multiple, Independent Repositories Using Role-Based Access Defining Users Operation of Multiple Repositories / Protocols in a Single Instance
Participant Consent Tracking by Protocol at the Individual Specimen Level Registering ConsentUpdating Consent Validating Consent before Distribution
Tracking Biospecimen Collection and Receipt Parameters Specimen Collection Group (Applies to all specimens collected in the group) When / who collected from the participant: Surgeon Clinician CRA Pathologist When / who received the specimen: Pathologist Pathology Assistant Biospecimen Bank Staff
Tracking Specimen Collection Timepoints Status of collection time point Time point with specimens collected (gold) Collected specimen (purple) Pending or not collected specimen (black)
Tracking Specimen Processing Events Recording when / who / how specimen was frozen Recordable specimen events
Monitoring Biospecimen QA Tissue Specimen Review Event- Who / When Details
Biospecimen QA Reporting ANALYZE Distribution of RNA RIN Scores for Frozen Tissue Specimens Filter based on: RNA / DNA Fixed / Frozen Tissue Tissue Site Collector Collection Date Collection Site Processing Technician QUERYREPORT
caTissue Suite Pathology Annotation CAP Cancer Checklist caTissue Suite Pathology Annotation Form Dynamic Extensions (DE) Tool
Creation and Management of Custom Searches and Result Views Customized QueryResults View Saved Query Management and Keyword Search Bar
Legacy “Tissue Log” caTissue 1. Participants 2. SCGs 3. Specimens Use of New Bulk Operations Tool to Migrate Legacy Data to caTissue
Use of New Bulk Operations Tool to Perform Batch Data Import from External Data Sources
Data Sharing and Interoperability through caGrid caTissue Installation 1 caTissue 2 caTissue 3 caTissue 4 Repository A Repository B Repository C Collection Protocols caTissue Search (Web Interface) caGrid Search caB2B
caTissue Suite Support Illustrated manuals for technical and biobanking staff Web-based, interactive training tools Web- and human-based Knowledge Center resources
https://cabig-kc.nci.nih.gov/Biospecimen/KC caBIG™ Tissue Bank Knowledge Center
caTissue at Washington University School of Medicine An expanding network of integrated repositories and biospecimen laboratories with associated users, protocols, and biospecimens
The caTissue Biospecimen Network (2010) TestingProductionGrid-enabled Production 48 institutions 10,000 specimens 13 institutions 470,000 specimens 5 institutions 716,000 specimens Japan India UK Netherlands Australia
caTissue Resources The TBTT KC site- https://cabig-kc.nci.nih.gov/Biospecimen/KC Log on and try out the demo site for caTissue Suite v1.2- http://catissuesuitetest.wustl.edu/cas/login http://catissuesuitetest.wustl.edu/cas/login View narrated video overviews of the tool and installation- https://cabig-kc.nci.nih.gov/Biospecimen/KC/index.php/Video_Archive Practice learning how to use the tool on the E-learning portal- http://cabigtrainingdocs.nci.nih.gov/caTissue/index.html http://cabigtrainingdocs.nci.nih.gov/caTissue/index.html Browse through the on-line manual- https://cabig- kc.nci.nih.gov/Biospecimen/KC/index.php/CaTissue_1.1_User_Manual For additional questions, post them to the TBTT KC Forum- https://cabig-kc.nci.nih.gov/Biospecimen/forums/