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Dear all,
We plan to remove the GO_REL extension 'exists_during'. There are a lot of annotations to this term. The suggestion is to change the annotations from
`CC exists_during BP`
to `BP occu…
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## The issue
Currently, we don't do a good job supporting multiple types of `pranges`. We have on one side an example were `pranges` store peptides along proteins. With the new `EnsDb` access to p…
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Gather observations from literature on how strains and antigen types within strains compete and are affected by immunity.
Should be some overlap with Philip's initial 1.0 mechanism for search in var…
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Right now, the rule looks like this:
* If reaction2 is enabled_by entity1
* And reaction1 has entity1 as an input
* And reaction1 has entity2 as an input
* And reaction1 has complex1 conta…
goodb updated
2 years ago
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This needed to save manual efforts / for various purposes.
- total # concepts
- concepts breakdown (#topics, #operations, #data, #data->Identifiers, #formats)
- total #synonyms
- synonyms brea…
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See #12540 and https://github.com/cmungall/capital-offence/issues/1
## Pathway
- [GO:0033499](http://purl.obolibrary.org/obo/GO_0033499) ! galactose catabolic process via UDP-galactose [SYNONYM: "gala…
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E.g. on [`CHEMBL1201631` Compound Report Card](https://www.ebi.ac.uk/chembl/compound_report_card/CHEMBL1201631/), there is only one drug mechanism record. However, [http://mychem.info/v1/chem/CHEMBL12…
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Hi Peter
Looks like these Reactome pathway xrefs are missing:
gluconeogenesis (GO:0006094) = R-HSA-70263
fructose biosynthetic process (GO:0046370) = R-HSA-5652227
galactose catabolic process vi…
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The attached file does not sort properly by chromosome start and stop:
[tf_locus.bed.gz](https://github.com/biocore-ntnu/pyranges/files/7018207/tf_locus.bed.gz)
```
>>> import pyranges
>>> dat…
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**Aug 20, 2019 EDITED NUMBER OF ANNOTATIONS TO REVIEW**
According to the current version of the GO-CAM specifications, the extension 'happens_during' should only be used with biological phases or …