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Commit fbf357dc authored by Marek Ostaszewski's avatar Marek Ostaszewski
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Merge branch 'training_materials' into 'main'

adapted instructions

See merge request !3
parents cc2f3023 1559cb02
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1 merge request!3adapted instructions
...@@ -91,6 +91,9 @@ Take a look at the [vocabulary disclaimer](#read-first-vocabulary-and-data-model ...@@ -91,6 +91,9 @@ Take a look at the [vocabulary disclaimer](#read-first-vocabulary-and-data-model
2.1.3 Set up the initial compartment for the facts, use ![menuadd](../images/0_add.png) button to add a compartment and ![menuedit](../images/0_edit.png) to edit it. In the example below, the compartment is set to "cell" with the [qualifier annotation](http://mbine.org/standards/qualifiers) set to "bqbiol:is", annotation ontology set to "Cell Ontology" and the assigned identifier to [CL:0000000 (cell)](http://purl.obolibrary.org/obo/CL_0000000) (3 in the figure below). 2.1.3 Set up the initial compartment for the facts, use ![menuadd](../images/0_add.png) button to add a compartment and ![menuedit](../images/0_edit.png) to edit it. In the example below, the compartment is set to "cell" with the [qualifier annotation](http://mbine.org/standards/qualifiers) set to "bqbiol:is", annotation ontology set to "Cell Ontology" and the assigned identifier to [CL:0000000 (cell)](http://purl.obolibrary.org/obo/CL_0000000) (3 in the figure below).
2.1.4 Set the default qualifier to "bqbiol:is" and the annotation ontology set to "Uniprot Knowledgebase".
These will be used as defaults when adding elements.
<img src="../images/tmc_2_1_basket_details_inset.png" width="600"> <img src="../images/tmc_2_1_basket_details_inset.png" width="600">
### 2.2. Add elements ### 2.2. Add elements
...@@ -104,7 +107,7 @@ Take a look at the [vocabulary disclaimer](#read-first-vocabulary-and-data-model ...@@ -104,7 +107,7 @@ Take a look at the [vocabulary disclaimer](#read-first-vocabulary-and-data-model
Example: Example:
- use previolusly defined "cell" as the "Compartment" - use previolusly defined "cell" as the "Compartment"
- set "Bioentity type" to "Generic protein" - set "Bioentity type" to "Generic protein"
- set identifier namespace to "Uniprot Knowledgebase". - identifier qualifier and namespace are set from defaults.
Repeat for p65 and set its name to "RELA" by modifying the field "Species Name". Repeat for p65 and set its name to "RELA" by modifying the field "Species Name".
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