Observational Health Data Sciences and Informatics

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PROJECT PLANNING

• Current Task List
• List of Use Cases

ONCOLOGY WG PRODUCTS

OMOP CDM Oncology Module

1. OMOP CDM Oncology Extension (Complete PDF)
2. Part 1: "Oncology Extension Summary" (Power Point presentation)
3. Part 2: "Oncology Extension Detailed" (Word document)

OMOP CDM Extension Implementing Oncology Module

- DDL for EPISODE, EPISODE_EVENT and MEASUREMENT tables

ETL Instructions for converting Tumor Registry Data to OMOP

1. Crosswalk from Tumor Registry to OMOP
2. High Level ETL Steps
3. ETL Instructions for Mapping ICD-O diagnoses to SNOMED
4. ETL of NAACCR diagnosis and diagnostic modifiers

1. ETL Instructions for Mapping NAACCR Treatment Data into the OMOP-CDM - in progress
2. Ingestion of NAACCR into the OMOP vocabulary

** WORK IN-PROGRESS **

• Proposal for Ingestion of NAACCR into OMOP Vocabulary - Diagnostic Modifiers - in progress

PUBLICATIONS AND PRESENTATIONS BY WG MEMBERS

• OMOP CDM Oncology Module at Work 
• HemOnc: A New Standard Vocabulary for Oncology Drug Regimen Representation in the OMOP Common Data Model
• Conversion of Diagnosis and Chemotherapy Data in Electronic Health Records to Episode-based Oncology Extension of OMOP-CDM 
• HemOnc: A new standard vocabulary for chemotherapy regimen representation in the OMOP common data model
• Standardized Observational Cancer Research Using the OMOP CDM Oncology Module
• AMIA 2018: panel "Data Standardization in Cancer: Challenges and Opportunities"

• OHDSI 2018 European Symposium: poster "Improvement of cancer diagnosis representation in OMOP CDM"

• OHDSI 2018 Symposium: poster "SNOMED Extensions"

• 2018 OHDSI State of Collaborative: presentation
• 2017 Report to NCI: "Oncology Data Representation Challenges"

References and Archive