Terms to restrict from fungi

[gocentral]

Dear GO Editors,

We have noticed that some GO terms that are inappropriate for fungi are coming into AspGD and CGD from Interpro GO. We checked and these terms are not listed in the Taxon Trigger table. Would it be possible to add the terms listed below and restrict them from being used with fungi? We would like to use your trigger file to filter out these bad terms during GO transfer and it would be really helpful if the list were more complete.

GO:0007283 spermatogenesis GO:0097323 B cell adhesion GO:0036339 lymphocyte adhesion to endothelial cell of high endothelial venule GO:0097326 melanocyte adhesion GO:0036344 platelet morphogenesis GO:1901143 insulin catabolic process GO:0086042 cardiac muscle cell-cardiac muscle cell adhesion GO:0086071 atrial cardiac muscle cell-AV node cell adhesion involved in cell communication GO:008602 SA node cell-atrial cardiac muscle cell adhesion involved in cell communication GO:0086073..bundle of His cell-Purkinje myocyte adhesion involved in cell communication GO:0086072 AV node cell-bundle of His cell adhesion involved in cell communication GO:0086074 Purkinje myocyte-ventricular cardiac muscle cell adhesion involved in cell communication GO:0036339 lymphocyte adhesion to endothelial cell of high endothelial venule GO:0038085 vascular endothelial growth factor binding GO:0086084 cell adhesive protein binding involved in Purkinje myocyte-ventricular cardiac muscle cell communication GO:0086083 cell adhesive protein binding involved in bundle of His cell-Purkinje myocyte communication GO:0086082 cell adhesive protein binding involved in AV node cell-bundle of His cell communication GO:0038077 MAP kinase kinase kinase activity involved in innate immune response GO:0036332 placental growth factor-activated receptor activity GO:0036329 VEGF-D-activated receptor activity GO:0036328 VEGF-C-activated receptor activity GO:0036326 VEGF-A-activated receptor activity GO:0036327 VEGF-B-activated receptor activity GO:0036330 VEGF-E-activated receptor activity GO:0036053 glomerular endothelium fenestra

Thank you,

Diane

Reported by: dinglis

Original Ticket: geneontology/ontology-requests/9780

[gocentral]

• assigned_to: nobody --> tairtb

Original comment by: tberardini

[gocentral]

I propose putting restrictions on parent terms that are related (by is_a or part_of) to the terms you listed. The restrictions I propose are to have these terms be never in Fungi + Bacteria + Archaea (in some cases, add Viridiplantae too - these are marked with **)

(1) gamete generation - although there are no Fungi/Bacteria/Archaea gene annotated to this term right now, the definition is broad enough that one might think to use this term for multicellular fungi. Adding the restriction should encourage use of 'spore formation' or 'sporulation' terms instead.

for - spermatogenesis

(2) **leukocyte cell-cell adhesion - for

B cell adhesion lymphocyte adhesion to endothelial cell of high endothelial venule

(3) epithelial cell-cell adhesion - for

melanocyte adhesion

(4) **insulin metabolic process - for

insulin catabolic process

(5) **cardiac muscle cell-cardiac muscle cell adhesion

for

GO:0086042 cardiac muscle cell-cardiac muscle cell adhesion GO:0086071 atrial cardiac muscle cell-AV node cell adhesion involved in cell communication GO:008602 SA node cell-atrial cardiac muscle cell adhesion involved in cell communication GO:0086073..bundle of His cell-Purkinje myocyte adhesion involved in cell communication GO:0086072 AV node cell-bundle of His cell adhesion involved in cell communication GO:0086074 Purkinje myocyte-ventricular cardiac muscle cell adhesion involved in cell communication

(6) growth factor binding

for

vascular endothelial growth factor binding

(7) protein binding involved in heterotypic cell-cell adhesion

for

GO:0086084 cell adhesive protein binding involved in Purkinje myocyte-ventricular cardiac muscle cell communication GO:0086083 cell adhesive protein binding involved in bundle of His cell-Purkinje myocyte communication GO:0086082 cell adhesive protein binding involved in AV node cell-bundle of His cell communication

(8) innate immune response

for

GO:0038077 MAP kinase kinase kinase activity involved in innate immune response

(9)vascular endothelial growth factor receptor signaling pathway, GO:0048010

for

placental growth factor-activated receptor activity

(10) GO: 0070848, response to growth factor stimulus

for

GO:0036329 VEGF-D-activated receptor activity GO:0036328 VEGF-C-activated receptor activity GO:0036326 VEGF-A-activated receptor activity GO:0036327 VEGF-B-activated receptor activity GO:0036330 VEGF-E-activated receptor activity

(11) GO:0036053 glomerular endothelium fenestra (no parent term that can have same restrictions)

Original comment by: tberardini

[gocentral]

Hi Tanya,

That sounds like a good plan to me.

Thank you,

Diane

Original comment by: dinglis

[gocentral]

Added in taxon restrictions as described.

Original comment by: tberardini

[gocentral]

• status: open --> closed-accepted

Original comment by: tberardini