Closed ar-ibrahim closed 6 months ago
They are looking at the composition of breast tissue in a population. One of the major tissue components is adipose tissue. They call this trait 'breast density', because they are looking at pixel densities of mammographs in 2D. I think the PATO quality composition --> fatty PATO:0002114 captures the gist of the genetic trait they are measuring.
I would suggest to add a synonym like breast tissue density
so that it is easier to find based on the original breast density
term used in the paper.
Typically, a simple way to fix this and similar errors is as follows:
src/patterns/data/default/entity_attribute.tsv
file) that you want to add in a place outside of your github controlled PR branch (e.g. in a temporary textfile or a spreadsheet on your machine). You will want to add this back later:
OBA:2050351 breast density UBERON:0000310 breast PATO:0001019 mass density breast tissue density PMID:37345113 https://orcid.org/0000-0001-6757-4744
src/patterns/data/default/entity_attribute.tsv
in your branch with the latest version of this file from the master
branch. You can do that in many different ways. Here is how to do it on the command line:
git checkout master -- path/to/your/folder/entity_attribute.tsv
entity_attribute.tsv
table.definitions.owl
:
sh run.sh make ../patterns/definitions.owl
entity_attribute.tsv
, definitions.owl
) and commit to github.entity_attribute.tsv
between your branch and the master branch is the one line that you wanted to add.
Let the QC and automatic actions complete and the PR is ready for review/merge.