Opened 7 years ago

Last modified 6 years ago

#771 closed task

Yellow label highlighting a representative specimen — at Version 2

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: major Milestone: Reggie v4.3
Component: net.sf.basedb.reggie Keywords:

Description (last modified by Nicklas Nordborg)

A new annotation named YellowLabel for samples of subtype Specimen. It should be a string enum with one allowed value: yellow (more values may be defined in the future).

At some point, one of the available labels on the pathology referral form will be colored yellow (the yellow label).

When registered, a specimen with the yellow label should be annotated as YellowLabel = yellow. The idea is that the pathologist will highlight a biopsy (using the yellow label) to indicate that it is suitable for further analysis with respect to clinically relevant end-points. That is, a yellow label is the pathologists way of ‘requesting’ a clinical report or at least indicating that a report generated for the specimen should be relevant for the breast cancer.

The pathologist will still have the possibility to collect additional tissue samples (specimen) in separate RNAlater tubes marked with individual labels (not yellow). The instructions to the pathologist will go so far as to specify that if it’s deemed that a representative specimen cannot be collected the yellow label should not be used at all. In such a senario, the pathologist will still have the possibility to collect a non-representative specimen, e.g., a node-metastasis or a piece of tumor adjacent tissue or tumor tissue that the pathologists simply does not deem as representative.

Samples registered with regular labels (not yellow) should be not be annotated.

Samples that are already registered will not be ‘retro’ annotated.

This ticket may be divided into subtickets:

  • Changes in specimen registration for marking the YellowLabel tube (#827)
  • Gui changes in other wizard to highlight the YellowLabel
  • Track and report YellowLabel separately

Change History (2)

comment:1 Changed 6 years ago by Nicklas Nordborg

Description: modified (diff)

Renamed the RepresentativeSpecimen annotation to YellowLabel.

comment:2 Changed 6 years ago by Nicklas Nordborg

Description: modified (diff)
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