Specimen

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Scope of Specimen Project

The scope of the project is to:

• Complete DAM incorporating various use cases (OO, CG, II, AP)
• Complete Specimen V3 models based on other use cases (CG, II, AP)
• Consider V2 Updates
• Support Specimen Identifier formats as further established by AP workgroup

Leadership

Topic leads:

• Review/refine DAM – Joyce Hernandez, Mukesh Sharma
• Starting point: NCI Life Sciences DAM: Specimen Core.
• V3 CMET/RMIM compare + updates – Lorraine Constable
• V2 SPM compare + updates – Riki Merrick, Hans Buitendijk
• Validate Specimen Identifier format support - TBD

Conference Calls and Minutes

• Dates: Every other Thursday, starting Feb 16, 2012
  • Time: 12:00 - 13:00 EST
• Phone: +1 770-657-9270
  • Passcode: 653212
• Webex: http://www.mymeetings.com/siemens/nc/join.php?i=741301183&p=&t=c
  • Passcode: HL7OO
• List Serve: specimen@hl7.lists.org

Minutes

• File:SPM Minutes 20120216 ConCall.doc
• File:SPM Minutes 20120329 ConCall.doc
• File:SPM Minutes 20120412 ConCall.docx
• File:SPM Minutes 20120524 ConCall.doc
• File:SPM Minutes 20120621 ConCall.docx
• File:SPM Minutes 20120705 ConCall.docx
• File:SPM Minutes 20120816 ConCall.docx
• File:SPM Minutes 20121018 ConCall.docx
• File:SPM Minutes 20121101 ConCall.docx
• File:SPM Minutes 20121115 ConCall.docx
• File:SPM Minutes 20121213 ConCall.docx
• File:SPM Minutes 20130110 ConCall.docx
• File:SPM Minutes 20130131 ConCall.docx
• File:SPM Minutes 20130214 ConCall.docx
• File:SPM Minutes 20130307 ConCall.docx
• File:SPM Minutes 20130314 ConCall.docx
• File:SPM Minutes 20130328 ConCall.docx
• File:SPM Minutes 20130605 ConCall.docx
• File:SPM Minutes 20130725 ConCall.docx
• File:SPM Minutes 20130808 ConCall.docx
• File:SPM Minutes 20130905 ConCall.docx
• File:SPM Minutes 20131003 ConCall.doc
• File:SPM Minutes 20131010 ConCall.doc
• File:SPM Minutes 20131024 ConCall.doc
• File:SPM Minutes 20131031 ConCall.doc
• File:SPM Minutes 20131107 ConCall.doc
• File:SPM Minutes 20131114 ConCall.doc

Working Documents

Use Cases

• Clinical Sequencing Project - Identified Use Cases to Consider in Specimen CMET - from CG ClinSeq.doc
• Specimen Use Case for Isolate Representation
• Medical Research Use Case and Specimen Core Diagram Media:Specimen-Core Model Diagram and Medical Research Use Case Process Flow.xls
• Origin of Specimen
  • Need to indicate whether the specimen is human, animal, soil, etc.
  • For viral genetics where DNA/RNA can be extracted from a micro-organism.
• Notes from May WGM
  • II perspective mainly interested in specimen in context of interventional imaging
  • An introduction to the DICOM specimen information model is available in DICOM Part 17 (available free at ftp://medical.nema.org/medical/dicom/2011/11_17pu.pdf) Annex NN.
  • Detailed specimen information can be found in DICOM Part 3 (available free at ftp://medical.nema.org/medical/dicom/2011/11_03pu.pdf). This information that has been specified by DICOM WG26 "Pathology" (DICOM Supplement 122 "Specimen Identification and Revised Pathology" Project) should be taken into consideration in the project.

Status & Deliverables

Draft Model

Specimen Model in Gforge: http://gforge.hl7.org/gf/project/orders/scmsvn/?action=browse&path=%2Ftrunk%2FPOSP%2FDAM%2F

Definitions spreadsheet: File:Specimen DAM classes and attributes with notes.xlsx

• snapshot of Draft Model work in progress (draft model on the left, excerpts from NCI LSDAM on the right):

Links

LS DAM Wiki: https://wiki.nci.nih.gov/x/cxRlAQ

LS DAM Overview: https://wiki.nci.nih.gov/download/attachments/76677702/LSDAMSpecimenHL7OO.pptx

LS DAM (Enterprise Architect) : https://wiki.nci.nih.gov/download/attachments/23401587/LSDAMWorking.EAP

LS DAM (HTML): http://ncientarch.info/sandbox/LSDAM2_2_2/EARoot/EA3/EA1/EA1/EA1/EA1/EA1/EA4/EA157.htm