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Add ranker handling for infores:tcga biolink:has_evidence attribute

Open finnagin opened this issue 3 years ago • 2 comments

Some examples here: https://arax.ncats.io/beta/?r=36527

example edge attribute list containing the attribute of interest:

--
attribute_type_id: | biolink:aggregator_knowledge_source
value_type_id: | biolink:InformationResource
value: | infores:biothings-explorer
 ---
attribute_type_id: | Contribution
value_type_id: | biolink:has_evidence
value: | -0.25074358634572425
 ---
attribute_source: | infores:connections-hypothesis
attribute_type_id: | biolink:primary_knowledge_source
description: | The Connections Hypothesis Provider from NCATS Translator.
value_type_id: | biolink:InformationResource
value_url: | http://chp.thayer.dartmouth.edu
value: | infores:connections-hypothesis
 ---
attribute_source: | infores:gdc
attribute_type_id: | biolink:supporting_data_source
description: | The Cancer Genome Atlas provided by the GDC Data Portal.
value_type_id: | biolink:InformationResource
value_url: | https://portal.gdc.cancer.gov/
value: | infores:tcga
 ---
attribute_source: | infores:connections-hypothesis
attribute_type_id: | biolink:supporting_data_source
description: | Documents how Connections Hypothesis Provider builds ranked contribution values over tcga data.
value_type_id: | biolink:InformationResource
value_url: | https://di2ag.github.io/chp/chp_documentation#chp-single-hop-contribution-analysis
value: | infores:tcga
 ---
attribute_source: | infores:arax
attribute_type_id: | biolink:knowledge_source
description: | ARAX  inserted this attribute because the KP (BTE) did not seem to provide  such an attribute (indicating that this edge came from them).
value_type_id: | biolink:InformationResource
value: | infores:biothings-explorer
 ---
attribute_source: | infores:arax
attribute_type_id: | biolink:aggregator_knowledge_source
value_type_id: | biolink:InformationResource
value: | infores:arax
---
attribute_type_id:	biolink:aggregator_knowledge_source
value_type_id:	biolink:InformationResource
value:	infores:biothings-explorer
attribute_type_id:	Contribution
value_type_id:	biolink:has_evidence
value:	-0.25074358634572425
---
attribute_source:	infores:connections-hypothesis
attribute_type_id:	biolink:primary_knowledge_source
description:	The Connections Hypothesis Provider from NCATS Translator.
value_type_id:	biolink:InformationResource
value_url:	http://chp.thayer.dartmouth.edu/
value:	infores:connections-hypothesis
---
attribute_source:	infores:gdc
attribute_type_id:	biolink:supporting_data_source
description:	The Cancer Genome Atlas provided by the GDC Data Portal.
value_type_id:	biolink:InformationResource
value_url:	https://portal.gdc.cancer.gov/
value:	infores:tcga
---
attribute_source:	infores:connections-hypothesis
attribute_type_id:	biolink:supporting_data_source
description:	Documents how Connections Hypothesis Provider builds ranked contribution values over tcga data.
value_type_id:	biolink:InformationResource
value_url:	https://di2ag.github.io/chp/chp_documentation#chp-single-hop-contribution-analysis
value:	infores:tcga
---
attribute_source:	infores:arax
attribute_type_id:	biolink:knowledge_source
description:	ARAX inserted this attribute because the KP (BTE) did not seem to provide such an attribute (indicating that this edge came from them).
value_type_id:	biolink:InformationResource
value:	infores:biothings-explorer
---
attribute_source:	infores:arax
attribute_type_id:	biolink:aggregator_knowledge_source
value_type_id:	biolink:InformationResource
value:	infores:arax
---

finnagin avatar Feb 07 '22 19:02 finnagin

Still TODO. Connections hypothesis provider are familiar with these, so liaise with them about what the ranges are etc.

dkoslicki avatar Jun 05 '22 18:06 dkoslicki

Is the CHP KP still being maintained? If not, maybe we should downweight this issue in priority?

saramsey avatar Aug 13 '25 19:08 saramsey