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Jan 16, 2025 | 
zenodo.org | Charles Tapley Hoyt
Published January 16, 2025 | Version 2025-01-16 Software Open New ResourcesChEMBL CompoundChEMBL TargetNIH RePORTER Software: https://github.com/biopragmatics/obo-db-ingest/tree/2025-01-16 (URL)
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Jan 14, 2025 | 
zenodo.org | Charles Tapley Hoyt
Published January 14, 2025 | Version 2025-01-14 Software Open Full Changelog: https://github.com/biopragmatics/obo-db-ingest/compare/2025-01-13...2025-01-14 New Resources Pathway Interaction Database (pid.pathway) NCBI Genetic Code (ncbi.gc) CIVIC Gene (civic.gid) Integrated Taxonomic Information System (itis) Cancer Dependency Map Cell Lines (depmap) ClinicalTrials.gov (clinicaltrials) Software: https://github.com/biopragmatics/obo-db-ingest/tree/2025-01-14 (URL)...
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Jan 13, 2025 | 
zenodo.org | Charles Tapley Hoyt
Published January 13, 2025 | Version 2025-01-13 Software Open New Resourcesomim.psstysignorUpdatesAdd OFN outputsImproved metadata and idspace: definitions Software: https://github.com/biopragmatics/obo-db-ingest/tree/2025-01-13 (URL)
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Jan 12, 2025 | 
zenodo.org | Charles Tapley Hoyt
Published January 12, 2025 | Version 2025-01-12 Software Open New ResourcesNLM PublisherICD10GeoNames FeaturesROR Software: https://github.com/biopragmatics/obo-db-ingest/tree/2025-01-12 (URL)
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Nov 5, 2024 | 
zenodo.org | Charles Tapley Hoyt
Published November 5, 2024 | Version 2024-11-05 Software Open This is another rebuild, which includes all sorts of fixes for data going missing and getting messier. It also includes several improvements based on PyOBO's more aggressive identifier validation. Software: https://github.com/biopragmatics/obo-db-ingest/tree/2024-11-05 (URL)
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Oct 28, 2024 | 
zenodo.org | Charles Tapley Hoyt
Published October 28, 2024 | Version v0.1.0 Software Open What's Changed Extend data model and create OWL export by @cthoyt in https://github.com/biopragmatics/biosynonyms/pull/6 Make OWL generation more flexible by @cthoyt in https://github.com/biopragmatics/biosynonyms/pull/7 Full Changelog: https://github.com/biopragmatics/biosynonyms/compare/v0.0.1...v0.1.0 Notes Name Size md5:ae86f530b5a33f456eee6f1fb3f94ead 61.7 kB Software: https://github.com/biopragmatics/biosynonyms/tree/v0.1.0 (URL)...
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May 28, 2024 | 
nature.com | Charles Tapley Hoyt |Benjamin M. Gyori
Curated resources that support scientific research often go out of date or become inaccessible. This can happen for several reasons including lack of continuing funding, the departure of key personnel, or changes in institutional priorities.
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Apr 30, 2024 | 
zenodo.org | Charles Tapley Hoyt
DOI 10.5281/zenodo.11091422 Markdown [](https://doi.org/10.5281/zenodo.11091422) reStructuredText ..
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Apr 30, 2024 | 
zenodo.org | Charles Tapley Hoyt
Published April 30, 2024 | Version 2024-04-30 Dataset Open Originally a reproduction of the EFO/Cellosaurus/DepMap/CCLE scenario posed in the Biomappings paper, this configuration imports several different cell and cell line resources and identifies mappings between them.
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Apr 10, 2024 | 
nature.com | Tiffany J. Callahan |Sanya B. Taneja |Elena Casiraghi |Jonathan Silverstein |Charles Tapley Hoyt |Deepak R. Unni | +7 more
AbstractTranslational research requires data at multiple scales of biological organization. Advancements in sequencing and multi-omics technologies have increased the availability of these data, but researchers face significant integration challenges. Knowledge graphs (KGs) are used to model complex phenomena, and methods exist to construct them automatically. However, tackling complex biomedical integration problems requires flexibility in the way knowledge is modeled.
