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Wire BioModels reproducibility paper into Kefir community #66

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realmarcin merged 2 commits into from
May 17, 2026
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Wire BioModels reproducibility paper into Kefir community #66

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Wire BioModels reproducibility paper into Kefir community
realmarcin May 17, 2026
be9a096
Address Copilot review on PR #66
realmarcin May 17, 2026
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13 changes: 13 additions & 0 deletions kb/communities/BioModels_MODEL2204300001_Kefir_Community_Model.yaml
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Expand Up @@ -279,3 +279,16 @@ external_resources:
evidence_source: COMPUTATIONAL
snippet: Metabolic cooperation and spatiotemporal niche partitioning in a kefir microbial community.
explanation: Supports the kefir community metabolic modeling context for this record.
- reference: PMID:41343683
supports: PARTIAL
evidence_source: COMPUTATIONAL
snippet: we report here on our work updating, correcting and generating new SED-ML
files for 1055 curated mechanistic models in BioModels..we used a wrapper architecture
for interpreting SED-ML, and report verification results across five different
ODE-based biosimulation engines
explanation: Smith et al. 2025 PLoS Comput Biol audited the 1055 curated BioModels
entries (including this one) and updated/created SED-ML files, then verified
the models across five ODE-based biosimulation engines. Anchors the
reproducibility/verification of the underlying BioModels record. Partial
because the paper addresses the BioModels collection as a whole rather than
this specific kefir entry.