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Sequence Motif PWMs #1499

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riyavsinha opened this issue Apr 28, 2024 · 0 comments
Open

Sequence Motif PWMs #1499

riyavsinha opened this issue Apr 28, 2024 · 0 comments
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LinkML Note that LinkML is partly funded by a Phenomics First supplement question

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@riyavsinha
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Question:
While trying to represent a JASPAR motif (e.g. https://jaspar.elixir.no/matrix/MA0080.1/), I found myself unsure of how to do so. I think the NucleicAcidSequenceMotif is intended to represent this, but it doesn't have a has_biological_sequence slot like CodingSequence or AccessibleDNARegion. Additionally, I'm not sure that's sufficient since I would like to represent the PWM of the motif, which is generally a 2D array (supported in LinkML).

Is there a recommended way to do this in BioLink?
@nlharris nlharris added the LinkML Note that LinkML is partly funded by a Phenomics First supplement label May 8, 2024
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@nlharris @riyavsinha