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eweitz / ideogram

Chromosome visualization for the web
https://eweitz.github.io/ideogram
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Summarize interactions by direction #293

Closed eweitz closed 2 years ago

eweitz commented 2 years ago

This refines how relationships are described when a gene pair interacts in multiple pathways.

Previously, unless the gene pair interactions were exactly the same across pathways, the genes were said to merely "interact" with each other. Now, if the direction of interactions is the same across pathways, they are described slightly more specifically.

For example, say you search ABL1, and hover over the interacting gene ATM to learn more. Using data from WikiPathways, Ideogram knows that ATM interacts with ABL1 in two pathways; it "acts on" ABL1 in one pathway, and "stimulates" ABL1 in the other.

Previously, the related genes kit would see those two non-identical types of interaction and report ATM "Interacts with ABL1". Now, the kit more intelligently realizes that path "acts on" and "stimulates" are directionally equivalent, and reports ATM "acts on ABL1". It's more informative than before.

Before: direction not preserved ("Interacts with")

ATM_interacts_with_ABL1_crude_summary__Ideogram_2022-01-22

Now: direction preserved ("Acts on")

ATM_acts_on_ABL1_refined_summary__Ideogram_2022-01-22
coveralls commented 2 years ago

Coverage Status

Coverage increased (+0.3%) to 89.265% when pulling 111dc04aa8c4a2b1eaad3f30d9198ec4b970ef8c on interaction-direction-summary into 269a0cc33134aa18c869ac0e6bb185338070fb00 on master.