[Metadata Improvement]: Standardize MeasTech Metadata for Sources with existing Regular/Semiregular values

[gtsueng]

Issue Name

Standardize MeasTech Metadata for Sources with existing Regular/Semiregular values

Issue Description

Based on what we've observed for measurementTechnique standardization and augmentation, we will need at least two processes for standardization:

• Text2Term-based
• Mapping-based

We can move forward with the mapping-based standardization. Certain sources appear to use enum values for their measurementTechniques or at least have a semi-regular vocabulary in place. For these sources, we should simply map their values to Ontologies to standardize the values. These sources currently include:

• [ ] NCBI GEO (mapping done, note that mapping is one to many for this one)
• [ ] LINCS (mapping not yet done)
• [ ] REFRAMEDB (mapping done)
• [ ] NCBI SRA (mapping not yet done)
• [ ] VDJ Server (mapping done)
• [ ] ClinEpiDB (mapping done)

Issue Discussion

No response

Please select the type of metadata improvement

• [X] Standardization (normalizing free text to an ontology)
• [ ] Augmentation (adding values for metadata fields missing values)
• [ ] Clean up (addressing redundancy or messy metadata)
• [ ] Structure (changing the structuring of the metadata to support front end UI features)

Meta URL

No response

Related WBS task

https://github.com/NIAID-Data-Ecosystem/nde-roadmap/issues/13

For internal use only. Assignee, please select the status of this issue

• [ ] Not yet started
• [ ] In progress
• [ ] Blocked
• [ ] Will not address

Status Description

No response

Request status check list

• [ ] This metadata improvement has yet to be discussed between NIAID, Scripps, Leidos
• [X] This metadata improvement does not need to be discussed between NIAID, Scripps, Leidos
• [ ] This metadata improvement has been discussed/reported between NIAID, Scripps, Leidos
• [ ] This metadata improvement has been implemented locally to generate data for review
• [ ] This metadata improvement has been implemented on Dev
• [ ] This metadata improvement has been implemented on Dev and the results have been reviewed and approved for staging
• [ ] This metadata improvement has been implemented on Staging
• [ ] This page/documentation/change has been approved for Production
• [ ] This page/documentation/change has been implemented on Production

[gtsueng]

A mapping of duplicate terms across ontologies can be found here: https://docs.google.com/spreadsheets/d/1szDxEZoqdxpqzaSXbGXg3TUfWBKA_yANN45KByWvO5o/edit?gid=1409943033#gid=1409943033

Note that this mapping was generated by NCBO-Bioportal (primarily using automated methods), so it's far from comprehensive.