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documentation:oncology:proposals [2018/04/14 23:01] rimma_belenkaya |
documentation:oncology:proposals [2019/10/29 21:51] sratwani |
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- | **Oncology Data Representation Challenges** | ||
- | {{:documentation:oncology:oncology_data_standardization_challenges_2017-11-17.docx|Report to NCI}} | + | **PROJECT PLANNING** |
+ | * {{https://github.com/OHDSI/OncologyWG/issues | Current Task List}} | ||
+ | * {{https://github.com/OHDSI/OncologyWG/wiki/Cancer-registry-uses-cases | List of Use Cases}} | ||
- | **Project plan** | + | **ONCOLOGY WG PRODUCTS** |
- | [[https://drive.google.com/file/d/0B-aFA5uiBXbzUlppcENlNkp1VDA/view?usp=sharing]] | + | __OMOP CDM Oncology Module__ |
+ | * {{https://github.com/OHDSI/CommonDataModel/files/2589698/Oncology.CDM.Proposal.2018-11-15.pdf| OMOP CDM Oncology Extension (Complete PDF)}} | ||
+ | * {{ :documentation:oncology:oncology_cdm_proposal_part_i_2018-12-02.pptx | Part 1: "Oncology Extension Summary" (Power Point presentation)}} | ||
+ | * {{ :documentation:oncology:oncology_cdm_proposal_part_2_2018-12-02.docx | Part 2: "Oncology Extension Detailed" (Word document)}} | ||
- | **Diagnoses** | + | __OMOP CDM Extension Implementing Oncology Module__ |
- | * **[[https://docs.google.com/document/d/1ADxqvjO4MxoYoEd9aJPZOswSKAPvf4YOEjj0gWnwqfA/edit?usp=sharing|Cancer Diagnosis Representation Proposal]]** | + | * {{https://github.com/OHDSI/OncologyWG/tree/master/ddl|DDL for EPISODE, EPISODE_EVENT and MEASUREMENT tables}} |
- | * **{{:documentation:oncology:cancer_diagnostic_features_2018-02-07.pptx|Cancer Diagnostic Features proposal}}** | ||
- | * **{{https://docs.google.com/forms/d/1IvOY_IsdcRigLec80r9IvkaakyhBzr1mccniTaKGJKs/edit?c=0&w=1#responses|Cancer Diagnostic Features Proposal Voting Results}}** | + | __ETL Instructions for converting Tumor Registry Data to OMOP__ |
+ | * {{https://github.com/OHDSI/OncologyWG/blob/master/documentation/NAACCR - OMOP Diagnosis Crosswalk.pdf|Crosswalk from Tumor Registry to OMOP}} | ||
+ | * {{https://github.com/OHDSI/OncologyWG/blob/master/documentation/NAACCR ETL Steps.docx|High Level ETL Steps}} | ||
+ | * {{https://github.com/OHDSI/OncologyWG/wiki/ETL-Instructions-for-Mapping-ICDO-to-SNOMED|ETL Instructions for Mapping ICD-O diagnoses to SNOMED}} | ||
+ | *{{https://github.com/OHDSI/OncologyWG/blob/master/documentation/NAACCR.Ingestion.into.OMOP.Vocabulary.-.Diagnostic.Modifiers.docx|ETL of NAACCR diagnosis and diagnostic modifiers}} | ||
- | Misc diagnosis documents | + | - {{https://github.com/OHDSI/OncologyWG/wiki/ETL-Instructions-for-Mapping-NAACCR-Treatment-Data-into-the-OMOP-CDM | ETL Instructions for Mapping NAACCR Treatment Data into the OMOP-CDM}} - in progress |
- | * {{:documentation:oncology:nci_meta_exploration_results.docx|Exploration of ICD-O - NCI Thesaurus queries}} | + | - {{https://github.com/OHDSI/OncologyWG/issues/6| Ingestion of NAACCR into the OMOP vocabulary |
- | * {{:documentation:oncology:nci_mapping.pptx|Exploration of ICD-O - NCI Results}} | + | }} |
- | * {{:documentation:oncology:icd-o_and_snomed.pdf|ICD-O to SMOMED mappings}} | ||
- | * {{:documentation:oncology:icdo_histology_topography.xlsx|SEER Histology/Topography List Parsed}} | ||
+ | ** WORK IN-PROGRESS ** | ||
- | ** Treatments ** | + | * {{https://github.com/OHDSI/OncologyWG/issues/25| Proposal for Ingestion of NAACCR into OMOP Vocabulary - Diagnostic Modifiers}} - in progress |
- | * **[[https://github.com/OHDSI/CommonDataModel/issues/163|Treatment Proposal]]** | + | **PUBLICATIONS AND PRESENTATIONS BY WG MEMBERS** |
- | * [[https://docs.google.com/document/d/1_nPrTriYdsFa6jKCI70oqPeHTyw-WAsafCAUdmm869Q/edit|Feedback]] | + | * {{https://www.ohdsi.org/2019-us-symposium-showcase-27/ | OMOP CDM Oncology Module at Work }} |
+ | * {{https://www.ohdsi.org/2019-us-symposium-showcase-11/|HemOnc: A New Standard Vocabulary for Oncology Drug Regimen Representation in the OMOP Common Data Model}} | ||
+ | * {{https://www.ohdsi.org/2019-us-symposium-showcase-12/ | Conversion of Diagnosis and Chemotherapy Data in Electronic Health Records to Episode-based Oncology Extension of OMOP-CDM }} | ||
+ | * {{https://www.ncbi.nlm.nih.gov/pubmed/31238109 | HemOnc: A new standard vocabulary for chemotherapy regimen representation in the OMOP common data model}} | ||
+ | * {{https://www.ncbi.nlm.nih.gov/pubmed/31438365 |Standardized Observational Cancer Research Using the OMOP CDM Oncology Module}} | ||
+ | *{{https://www.ohdsi.org/web/wiki/lib/exe/fetch.php?media=documentation:oncology:amia_2018_s77_panel.pptx|AMIA 2018: panel "Data Standardization in Cancer: Challenges and Opportunities"}} | ||
- | * [[http://forums.ohdsi.org/t/oncology-treatment-proposal/4050|Forums]] | + | *{{https://www.ohdsi.org/web/wiki/lib/exe/fetch.php?media=documentation:oncology:ohdsi_2018_european_symposium_poster.pdf|OHDSI 2018 European Symposium: poster "Improvement of cancer diagnosis representation in OMOP CDM"}} |
- | * {{:documentation:oncology:ohdsi_oncology_treatment_model_comparison_a_vs_b.xlsx|Option A vs B: use cases, pros and cons}} | + | *{{https://www.ohdsi.org/web/wiki/lib/exe/fetch.php?media=documentation:oncology:ohdsi_2018_symposium_poster.pdf|OHDSI 2018 Symposium: poster "SNOMED Extensions"}} |
- | Misc treatment documents | + | *{{https://www.ohdsi.org/web/wiki/lib/exe/fetch.php?media=documentation:oncology:state_of_collaborative_address_-_rimma_belenkaya.pptx|2018 OHDSI State of Collaborative: presentation}} |
+ | *{{https://www.ohdsi.org/web/wiki/lib/exe/fetch.php?media=documentation:oncology:oncology_data_standardization_challenges_2017-11-17.docx|2017 Report to NCI: "Oncology Data Representation Challenges"}} | ||
- | * {{:documentation:oncology:ohdsi_oncology_wg_drug_research_djo_0724.pdf|Exploration of NCI oncology drug mappings to OHDSI vocabulary}} | ||
- | * {{:documentation:oncology:nci_ohdsi_drug_matches_all_0725.xlsx|Current mappings of NCI oncology drugs to OHDSI vocabulary}} | ||
- | * [[http://www.ohdsi.org/web/wiki/doku.php?id=cancer_treatment:chemotherapy| Cancer Chemotherapy Drugs]] | ||
- | |||
- | * {{:documentation:oncology:surgical_treatment_overview_2017-07-25.pptx| Surgical treatment ovreview}} | ||
- | |||
- | |||
- | |||
- | **Genomic CDM (G-CDM) Proposal** | ||
- | |||
- | [[https://drive.google.com/open?id=0B3kgLeD4hvJ6aWdIQkEzRXRmajQ|G-CDM specification]] | ||
- | (Seng Chan You <applegna@gmail.com>) | ||
- | |||
- | |||
- | **Face to Face Proceedings** | ||
- | |||
- | [[http://www.ohdsi.org/web/wiki/doku.php?id=documentation:oncology:meeting_notes_2017_oct-19|Notes and Next Steps]] | ||
+ | **[[documentation:oncology:archive|References and Archive]]** | ||