From 6f287d97bf01129767408bc0a6966d49fb5fb88f Mon Sep 17 00:00:00 2001 From: pgaudet Date: Wed, 18 Dec 2024 18:56:54 +0100 Subject: [PATCH] Update gene-product-information-gpi-format-20.md --- .../gene-product-information-gpi-format-20.md | 25 ++++++++++--------- 1 file changed, 13 insertions(+), 12 deletions(-) diff --git a/_docs/gene-product-information-gpi-format-20.md b/_docs/gene-product-information-gpi-format-20.md index 9de5c3f3..d296a7fa 100644 --- a/_docs/gene-product-information-gpi-format-20.md +++ b/_docs/gene-product-information-gpi-format-20.md @@ -37,19 +37,20 @@ Mandatory elements of the GPI 2.0 file header are: The GPI 2.0 file comprises 11 tab-delimited fields. For fields that multiple values, those should be separated by pipes (`|`). **Required fields are in bold.** -| **Column** | **Content** | **Cardinality** | **Example 1: protein**| **Example 2: isoform**| **Example 3: protein complex** | **Example 4: modified form** | **Example 5: ncRNA** +| **Column** | **Content** | **Cardinality** | **Example 1: protein**| **Example 2: protein (MOD) | Example 3: isoform**| **Example 4: protein complex** | **Example 5: ncRNA** |----------|---------|-------------|---------|--------| -| 1 | **[DB:Object ID](#1-dbdb-object-id "Definition and requirements for DB:DB_Object_ID (column 1)")** | 1 | UniProtKB:Q4VCS5| UniProtKB:Q4VCS5-1| SGD:S000217643 | PR:Q9DAQ4-1 |  RNAcentral:URS0000527F89_9606 |  -| 2 | **[Object Symbol](#2-db-object-symbol "Definition and requirements for DB Object Symbol (column 2)")** | 1 | AMOT| AMOT| CBF1:MET4:MET28 | m1700003E16Rik/iso:m1 | URS0000527F89_9606 |  -| 3 | [Object Name](#3-db-object-name "Definition and requirements for DB Object Name (column 3)") | 0 or 1 | Angiomotin| Angiomotin| sulfur metabolism transcription factor complex | uncharacterized protein C2orf81 homolog isoform m1 (mouse) | Homo sapiens (human) hsa-miR-145-5p |  -| 4 | [Object_Synonym(s)](#4-db-object-synonym "Definition and requirements for DB Object Synonym(s) (column 4)") | 0 or > | KIAA1071| KIAA1071| | m1700003E16Rik/iso:m1 PR:000000001 |  |  -| 5 | **[Object Type](#5-db-object-type "Definition and requirements for DB Object Type (column 5)")** | 1 | PR:000000001| PR:000000001| GO:0032991 | PR:000000001 | SO:0000276 -| 6 | **[Object Taxon](#6-db-object-taxon "Definition and requirements for DB Object Taxon (column 6)")** | 1 | NCBITaxon:9606| NCBITaxon:9606| NCBITaxon:559292 | NCBITaxon:10090 | NCBITaxon:9606| -| 7 | [Encoded by](#7-encoded-by "Definition and requirements for Encoded by (column 7)") | 0 or > | HGNC:17810 | HGNC:17810 | | MGI:MGI:1919087 | HGNC:31532 | -| 8 | [Parent Protein](#8-parent-protein "Definition and requirements for Parent Protein (column 8)") | 0 or 1 | | UniProtKB:Q4VCS5 | | PR:Q9DAQ4 | | -| 9 | [Protein Complex Members](#9-protein-containing-complex-members "Definition and requirements for Protein Containing Complex Members (column 9)") | 0 or > | | |SGD:S000003821 \|
SGD:S000001456 \|
SGD:S000005047| | | -| 10 | [Cross-reference(s)](#10-db-xrefs "Definition and requirements for DB_Xref(s) (column 10)") | 0 or > | NCBIGene:154796 \|
ENSEMBL:ENSG00000126016 | NCBIGene:154796 \|
ENSEMBL:ENSG00000126016 | ComplexPortal:CPX-1016 | UniProtKB:Q9DAQ4-1 | ENSG00000276365 |  -| 11 | [Gene Product Properties](#11-gene-product-properties "Definition and requirements for Gene Product Properties (column 11)") | 0 or > | db_subset=Swiss-Prot| | | |  +| 1 | **[DB:Object ID](#1-dbdb-object-id "Definition and requirements for DB:DB_Object_ID (column 1)")** | 1 | UniProtKB:Q4VCS5| WB:WBGene00000007 | UniProtKB:Q4VCS5-1| SGD:S000217643 |  RNAcentral:URS0000527F89_9606 |  +| 2 | **[Object Symbol](#2-db-object-symbol "Definition and requirements for DB Object Symbol (column 2)")** | 1 | AMOT| aat-6 |  +AMOT| CBF1:MET4:MET28 | URS0000527F89_9606 |  +| 3 | [Object Name](#3-db-object-name "Definition and requirements for DB Object Name (column 3)") | 0 or 1 | Angiomotin| Amino acid transporter protein 6 | Angiomotin| sulfur metabolism transcription factor complex |  Homo sapiens (human) hsa-miR-145-5p |  +| 4 | [Object_Synonym(s)](#4-db-object-synonym "Definition and requirements for DB Object Synonym(s) (column 4)") | 0 or > | KIAA1071| aat-6|T11F9.4 | KIAA1071| |  |  +| 5 | **[Object Type](#5-db-object-type "Definition and requirements for DB Object Type (column 5)")** | 1 | PR:000000001| PR:000000001 | PR:000000001| GO:0032991 | SO:0000276 +| 6 | **[Object Taxon](#6-db-object-taxon "Definition and requirements for DB Object Taxon (column 6)")** | 1 | NCBITaxon:9606| NCBItaxon:6239| NCBITaxon:9606| NCBITaxon:559292 |  NCBITaxon:9606| +| 7 | [Encoded by](#7-encoded-by "Definition and requirements for Encoded by (column 7)") | 0 or > | HGNC:17810 | | HGNC:17810 | |HGNC:31532 | +| 8 | [Parent Protein](#8-parent-protein "Definition and requirements for Parent Protein (column 8)") | 0 or 1 | | | UniProtKB:Q4VCS5 | | | +| 9 | [Protein Complex Members](#9-protein-containing-complex-members "Definition and requirements for Protein Containing Complex Members (column 9)") | 0 or > | | | |SGD:S000003821 \|
SGD:S000001456 \|
SGD:S000005047|  | +| 10 | [Cross-reference(s)](#10-db-xrefs "Definition and requirements for DB_Xref(s) (column 10)") | 0 or > | NCBIGene:154796 \|
ENSEMBL:ENSG00000126016 | UniProtKB:Q22397 | NCBIGene:154796 \|
ENSEMBL:ENSG00000126016 | ComplexPortal:CPX-1016 |  ENSG00000276365 |  +| 11 | [Gene Product Properties](#11-gene-product-properties "Definition and requirements for Gene Product Properties (column 11)") | 0 or > | db_subset=Swiss-Prot| | |  |  ### Definitions and requirements for GPI 2.0 field contents #### 1. DB:Object ID