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Show more relevant interacting genes #374

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merged 2 commits into from
Oct 29, 2024
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@eweitz eweitz commented Oct 29, 2024

This improves gene discoverability, by surfacing more interacting genes. That gives much more functional insight.

Previously, group interactions were mostly undisplayed. Pathways model interactions between A) individual genes, B) groups of genes, and C) a mix of A and B. Interactions between individual genes are very common and well-handled. However, Gene Leads only showed one gene in any gene group. That's before than nothing, but quite limited!

Now, Gene Leads shows many more genes in any group. The number of interacting genes is limited to the 20 highest-ranked 20 genes. This mitigates apparent "orphan cases" with only 1 interacting gene shown, while also keeping the UI clean and relevant for genes with very many interacting genes -- e.g. genes in a common gene family, or genes encoding proteins that are part of a common protein complex.

Pathway data have also been updated to the most recent version of WikiPathways.

Here's how it looks!

SPIB

Before:
SPIB_before__Ideogram_2024-10-29

After:
SPIB_after__Ideogram_2024-10-29

CSN2

Before:
CSN2_before__Ideogram_2024-10-29

After:
CSN2_after__Ideogram_2024-10-29

LDLR

Before:
LDLR_before__Ideogram_2024-10-29

After:
LDLR_after__Ideogram_2024-10-29

@eweitz eweitz merged commit 8b333f7 into master Oct 29, 2024
@eweitz eweitz deleted the fuller-sparse-interactions branch October 29, 2024 12:58
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