ClinGen / gene-and-variant-curation-tools

ClinGen's gene and variant curation interfaces (GCI & VCI). Developed by Stanford ClinGen team.
https://curation.clinicalgenome.org/
MIT License
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Flag any PMIDs in the GCI/VCI that are actually preprints #351

Open bmpbowen opened 7 months ago

bmpbowen commented 7 months ago

NLM is piloting the assignment of PMIDs for preprints in PubMed. As this was not an intended use of the current PMID features in the VCI and GCI, we need to:

1) Block any new preprint PMIDs from being added to the GCI and VCI 2) Retrospectively add a flag to the VCI and GCI for any PMIDs added in the past year that are actually preprints, and notify GCEPs if any preprint evidence used in curations has since been published as it may need to be re-curated

Note: Eventually, while we will support adding preprints to the VCI/GCI, we will do so via DOIs, not via PMIDs, because there is no guarantee that PMID support for preprints will extend past the NLM pilot phase. For more background on this decision, see Monica's slides: https://docs.google.com/presentation/d/1yAZBlGuQjeTTdRa5qC-D3QHM_mwDR-8w/edit#slide=id.p2

bmpbowen commented 6 months ago

We also need to 1) quantify how many PMIDs added in the last year came from a preprint server using the PubMed title field. 2) Need to add a warning for users for every new attempt to add a PMID that is a preprint see mock-up here: https://docs.google.com/presentation/d/1yAZBlGuQjeTTdRa5qC-D3QHM_mwDR-8w/edit#slide=id.g2a391729c87_0_0