[Source]: NIAID Medium priority Resource Catalogs (part 1)

[gtsueng]

Source Name

NIAID Medium priority Resource Catalogs (part 1)

Source URL

https://discovery.biothings.io/guide/nde/ResourceCatalog

Source Description

This is a list of resources prioritized for inclusion by NIAID into the NIAID Data Ecosystem that have been sorted by the Scripps team for inclusion as Resource Catalogs:

• https://flybase.org/ (2024-05-23)
• https://wormbase.org//#012-34-5 (2024-05-23)
• https://yeastgenome.org/ (2024-05-23)
• https://www.ncbi.nlm.nih.gov/clinvar/intro/ (2024-06-14)
• https://www.clinicalgenome.org/ (2024-06-18)
• https://www.beiresources.org/ (2024-06-18)
• http://www.specimenrepository.org/RepositorySite/home.html (2024-07-23)
• https://aledb.org/ (2024-07-23)
• https://bacdive.dsmz.de/ (2024-07-23)
• https://ecocyc.org/ (2024-07-31)
• https://hfv.lanl.gov/content/index (2024-07-31)
• https://hcv.lanl.gov/content/index (2024-07-31)
• https://www.hiv.lanl.gov/content/index (2024-07-31)

Note that there are more prioritized resources, but they will be added to a separate issue. Not all the resources been prioritized nor have all the prioritized resources been evaluated for inclusion as Resource Catalogs.

Source Access

Unknown

Source Funding

No response

Source Relevance

These are resources that have been prioritized NIAID for inclusion

Related WBS task

• Check here if this repository is funded by NIAID (https://github.com/NIAID-Data-Ecosystem/nde-roadmap/issues/11)
• Check here if this repository only has IID data (https://github.com/NIAID-Data-Ecosystem/nde-roadmap/issues/12)
• Check here if this is a generalist repository with IID data (https://github.com/NIAID-Data-Ecosystem/nde-roadmap/issues/12)

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

• Not yet started
• In process
• Blocked
• Will not include

Status Description

No response

Source to-do list

• License check- Can this source be included?
• Class check- Does this source have the right class of research output for inclusions?
• NIAID Review- Does NIAID approve of the inclusion of this source?
• Data access check- Have data access issues been resolved?
• Structured data check- Does this source have structured data?
• Mapping check- Has the properties from this source been mapped to the schema?
• Parser check- Has the parser been written?
• Parsed data check- Has a sanity check on the data obtained from this source been performed?
• Merge data- Has the crawler/plugin been successfully integrated with the system?
• Issues could not be resolved - Add as a single record via the DDE

[gtsueng]

As of 2024.06.18, the following ResourceCatalogs have been ingested into the DDE:

• https://flybase.org/ (https://discovery.biothings.io/dataset/136f77a47a3e203a)
• https://wormbase.org//#012-34-5 (https://discovery.biothings.io/dataset/5a6bc368148ab46e)
• https://yeastgenome.org/ (https://discovery.biothings.io/dataset/56d15748b50a6e70)
• https://www.ncbi.nlm.nih.gov/clinvar/intro/ (https://discovery.biothings.io/dataset/a13ce89d9fe6c6c4)
• https://www.clinicalgenome.org/ (https://discovery.biothings.io/dataset/b880e7dc2c2437e0)

[gtsueng]

As of 2024.06.21, the following ResourceCatalogs have been ingested into the DDE:
https://www.beiresources.org/ (https://discovery.biothings.io/dataset/933c129858283201)

[gtsueng]

As of 2024.07.23, the following ResourceCatalogs have been ingested into the DDE:
http://www.specimenrepository.org/RepositorySite/home.html | https://discovery.biothings.io/dataset/eb4e1ad280483af0
https://aledb.org/ | https://discovery.biothings.io/dataset/11bb8ccc46a23eb7
https://bacdive.dsmz.de/ | https://discovery.biothings.io/dataset/e9c5ccfa4872afe2

[gtsueng]

As of 2024.07.31, the following Resource Catalogs have been ingested into the DDE:
EcoCyc | dde_814769360e4ce207
Hemorrhagic Fever Viruses (HFV) Database Project | https://discovery.biothings.io/dataset/c28d2988769e7528
Hepatitis C Virus Database Project (HCV) | https://discovery.biothings.io/dataset/1f4b344365159fa5
HIV Databases | https://discovery.biothings.io/dataset/692ee0c5c7bc9166

[gtsueng]

@hartwickma, @lisa-mml, @rshabman, @sudvenk

The Ask: Please review the following ResourceCatalogs in Staging and check the box if they are approved for Production.

• https://flybase.org/
• https://wormbase.org//#012-34-5
• https://yeastgenome.org/
• https://www.ncbi.nlm.nih.gov/clinvar/intro/
• https://www.clinicalgenome.org/
• https://www.beiresources.org/
• http://www.specimenrepository.org/RepositorySite/home.html
• https://aledb.org/
• https://bacdive.dsmz.de/
• https://ecocyc.org/
• https://hfv.lanl.gov/content/index
• https://hcv.lanl.gov/content/index
• https://www.hiv.lanl.gov/content/index