diff --git a/specs/gpad-gpi-2-0.md b/specs/gpad-gpi-2-0.md index 926f12c..246fc7e 100644 --- a/specs/gpad-gpi-2-0.md +++ b/specs/gpad-gpi-2-0.md @@ -68,7 +68,7 @@ Header property | Example value | Comment | ------ | ------ | ------ | ------ | ------ | | 1 | DB_Object_ID | [ID](#ID)| `UniProtKB:P11678` | | | 2 | Negation | 'NOT'?| `NOT` | | -| 3 | Relation | [ID](#ID)| `RO:0002263` | The relation used MUST come from the [allowed gene-product-to-term relations](#allowed-gene-product-to-go-term-relations) | +| 3 | Relation | [ID](#ID)| `RO:0002263` | The relation used SHOULD come from the [allowed gene-product-to-term relations](#allowed-gene-product-to-go-term-relations) | | 4 | Ontology_Class_ID | [ID](#ID)| `GO:0050803` | The identifier MUST be a term from the GO ontology | | 5 | Reference | [ID](#ID) ( '\|' [ID](#ID) )*| `PMID:30695063` | Different IDs, e.g. PMID and MOD paper ID, MUST correspond to the same publication or reference | | 6 | Evidence_Type | [ID](#ID)| `ECO:0000315` | The evidence identifier MUST be a term from the ECO ontology. [GO evidence-ECO mapping file](https://purl.obolibrary.org/obo/eco/gaf-eco-mapping-derived.txt) | @@ -77,7 +77,7 @@ Header property | Example value | Comment | 9 | Annotation_Date | [Date_Or_Date_Time](#Date_Or_Date_Time)| `2019-01-30` | | | 10 | Assigned_By | [Prefix](#Prefix)| `MGI` | | | 11 | Annotation_Extensions | ( [Extension_Conj](#Extension_Conj) ( '\|' [Extension_Conj](#Extension_Conj) )* )?| `BFO:0000066(GO:0005829)` | | -| 12 | Annotation_Properties | ( [Property_Value_Pair](#Property_Value_Pair) ( '\|' [Property_Value_Pair](#Property_Value_Pair) )* )?| `contributor-id=orcid:0000-0002-1478-7671` | Properties and values MUST come conform to the list in [GPAD annotation properties](#gpad-annotation-properties) | +| 12 | Annotation_Properties | ( [Property_Value_Pair](#Property_Value_Pair) ( '\|' [Property_Value_Pair](#Property_Value_Pair) )* )?| `contributor-id=orcid:0000-0002-1478-7671` | Properties and values MUST conform to the list in [GPAD annotation properties](#gpad-annotation-properties) | ### GPI columns @@ -112,7 +112,7 @@ Header property | Example value | Comment | Property_Value | [Text](#Text)| | | ID | [Prefix](#Prefix) ':' [Local_ID](#Local_ID)| | | Prefix | [Alpha_Char](#Alpha_Char) [ID_Char](#ID_Char)*| The [GO database registry](https://github.com/geneontology/go-site/blob/master/metadata/db-xrefs.yaml) contains a list of valid prefixes that can be used in GPAD or GPI files. Every identifier prefix used in a GPAD or GPI file MUST have an entry in the registry. | -| Local_ID | ( [ID_Char](#ID_Char) \| ':' )+| | +| Local_ID | ( [ID_Char](#ID_Char) \| ':' \| '\/' )+| | | ID_Char | [Alpha_Char](#Alpha_Char) \| [Digit](#Digit) \| '_' \| '-' \| '.'| | | Date_Or_Date_Time | [Date](#Date) \| [Date_Time](#Date_Time)| | | Date | YYYY-MM-DD| Corresponds to [xsd:date](https://www.w3.org/TR/xmlschema-2/#date) without optional timezone (a subset of the ISO 8601 standard) |