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Updated defs. #29745 #29769

Merged
merged 1 commit into from
Feb 21, 2025
Merged

Updated defs. #29745 #29769

merged 1 commit into from
Feb 21, 2025

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sjm41
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@sjm41 sjm41 commented Feb 21, 2025

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Here's a diff of how these changes impact the classified ontology:

Ontology comparison

Left

  • Ontology IRI: http://purl.obolibrary.org/obo/go.owl
  • Version IRI: http://purl.obolibrary.org/obo/go/releases/2025-02-21/go.owl
  • Loaded from: file:/__w/go-ontology/go-ontology/src/ontology/../../reasoned-master.owl/reasoned.owl

Right

  • Ontology IRI: http://purl.obolibrary.org/obo/go.owl
  • Version IRI: http://purl.obolibrary.org/obo/go/releases/2025-02-21/go.owl
  • Loaded from: file:/__w/go-ontology/go-ontology/src/ontology/../../reasoned-pr.owl/reasoned.owl

Ontology imports

Ontology annotations

chondroitin sulfate proteoglycan biosynthetic process http://purl.obolibrary.org/obo/GO_0050650

Removed

Added

chondroitin sulfate proteoglycan catabolic process http://purl.obolibrary.org/obo/GO_0030207

Removed

Added

chondroitin sulfate proteoglycan metabolic process http://purl.obolibrary.org/obo/GO_0050654

Removed

  • chondroitin sulfate proteoglycan metabolic process definition "The chemical reactions and pathways involving chondroitin sulfate proteoglycans, which have glycosaminoglycan repeat units consisting of beta-(1,4)-linked D-glucuronyl beta-(1,3)-N-acetyl-D-galactosamine sulfate. Chondroitin sulfates are a group of 10-60 kDa glycosaminoglycans, widely distributed in cartilage and other mammalian connective tissues."

Added

dermatan sulfate proteoglycan biosynthetic process http://purl.obolibrary.org/obo/GO_0050651

Removed

Added

dermatan sulfate proteoglycan catabolic process http://purl.obolibrary.org/obo/GO_0030209

Removed

Added

dermatan sulfate proteoglycan metabolic process http://purl.obolibrary.org/obo/GO_0050655

Removed

Added

glycosaminoglycan biosynthetic process http://purl.obolibrary.org/obo/GO_0006024

Removed

Added

glycosaminoglycan catabolic process http://purl.obolibrary.org/obo/GO_0006027

Removed

Added

glycosaminoglycan metabolic process http://purl.obolibrary.org/obo/GO_0030203

Removed

Added

glycosaminoglycan-protein linkage region biosynthetic process http://purl.obolibrary.org/obo/GO_0120532

Removed

Added

heparan sulfate proteoglycan biosynthetic process http://purl.obolibrary.org/obo/GO_0015012

Removed

  • heparan sulfate proteoglycan biosynthetic process definition "The chemical reactions and pathways resulting in the formation of heparan sulfate proteoglycans, which have glycosaminoglycan repeat units consisting of alternating alpha-(1->4)-linked hexuronic acid and glucosamine residues; the former are a mixture of sulfated and nonsulfated D-glucuronic acid and L-iduronic acid; the L-iduronic acid is either sulfated or acetylated on its amino group as well as being sulfated on one of its hydroxyl groups; heparan sulfate chains are covalently linked to peptidyl-serine by a glycosidic attachment through the trisaccharide galactosyl-galactosyl-xylosyl to serine residues."

Added

heparan sulfate proteoglycan catabolic process http://purl.obolibrary.org/obo/GO_0030200

Removed

  • heparan sulfate proteoglycan catabolic process definition "The chemical reactions and pathways resulting in the breakdown of proteoglycans containing heparan sulfate, any member of a group of glycosaminoglycans that have repeat units consisting of alternating alpha-(1->4) linked hexuronic acid and glucosamine residues, the former being a mixture of sulfated and nonsulfated D-glucuronic and L-iduronic acids, and the latter being either sulfated or acetylated on its amino group as well as sulfated on one of its hydroxyl groups."

Added

heparan sulfate proteoglycan metabolic process http://purl.obolibrary.org/obo/GO_0030201

Removed

  • heparan sulfate proteoglycan metabolic process definition "The chemical reactions and pathways involving proteoglycans containing heparan sulfate, any member of a group of glycosaminoglycans that have repeat units consisting of alternating alpha-(1->4)-linked hexuronic acid and glucosamine residues, the former being a mixture of sulfated and nonsulfated D-glucuronic and L-iduronic acids, and the latter being either sulfated or acetylated on its amino group as well as sulfated on one of its hydroxyl groups."

Added

heparin proteoglycan biosynthetic process http://purl.obolibrary.org/obo/GO_0030210

Removed

Added

heparin proteoglycan catabolic process http://purl.obolibrary.org/obo/GO_0030211

Removed

Added

heparin proteoglycan metabolic process http://purl.obolibrary.org/obo/GO_0030202

Removed

  • heparin proteoglycan metabolic process definition "The chemical reactions and pathways involving heparin proteoglycans, which have glycosaminoglycan repeats consisting predominantly of alternating alpha-(1->4)-linked D-galactose and N-acetyl-D-glucosamine-6-sulfate residues. Heparin is similar to heparan sulfates but is of somewhat higher average Mr (6000-20000) and contains fewer N-acetyl groups and more N-sulfate and O-sulfate groups. They found mainly as an intracellular component of mast cells."

Added

hyaluronan biosynthetic process http://purl.obolibrary.org/obo/GO_0030213

Removed

Added

hyaluronan catabolic process http://purl.obolibrary.org/obo/GO_0030214

Removed

Added

hyaluronan metabolic process http://purl.obolibrary.org/obo/GO_0030212

Removed

Added

keratan sulfate proteoglycan biosynthetic process http://purl.obolibrary.org/obo/GO_0018146

Removed

  • keratan sulfate proteoglycan biosynthetic process definition "The chemical reactions and pathways resulting in the formation of keratan sulfate proteoglycans, which have glycosaminoglycan repeat units consisting of beta-1,4-linked D-galactopyranosyl-beta-(1,4)-N-acetyl-D-glucosamine 6-sulfate and with variable amounts of fucose, sialic acid and mannose units; keratan sulfate chains are covalently linked by a glycosidic attachment through the trisaccharide galactosyl-galactosyl-xylose to peptidyl-threonine or serine residues."

Added

keratan sulfate proteoglycan catabolic process http://purl.obolibrary.org/obo/GO_0042340

Removed

  • keratan sulfate proteoglycan catabolic process definition "The chemical reactions and pathways resulting in the breakdown of keratan sulfate proteoglycans, which have glycosaminoglycan repeat units consisting of beta-1,4-linked D-galactopyranosyl-beta-(1,4)-N-acetyl-D-glucosamine 6-sulfate and with variable amounts of fucose, sialic acid and mannose units; keratan sulfate chains are covalently linked by a glycosidic attachment through the trisaccharide galactosyl-galactosyl-xylose to peptidyl-threonine or serine residues."

Added

keratan sulfate proteoglycan metabolic process http://purl.obolibrary.org/obo/GO_0042339

Removed

  • keratan sulfate proteoglycan metabolic process definition "The chemical reactions and pathways involving keratan sulfate proteoglycans, which have glycosaminoglycan repeat units consisting of beta-1,4-linked D-galactopyranosyl-beta-(1,4)-N-acetyl-D-glucosamine 6-sulfate and with variable amounts of fucose, sialic acid and mannose units; keratan sulfate chains are covalently linked by a glycosidic attachment through the trisaccharide galactosyl-galactosyl-xylose to peptidyl-threonine or serine residues."

Added

peptidoglycan biosynthetic process http://purl.obolibrary.org/obo/GO_0009252

Removed

Added

peptidoglycan catabolic process http://purl.obolibrary.org/obo/GO_0009253

Removed

Added

peptidoglycan metabolic process http://purl.obolibrary.org/obo/GO_0000270

Removed

Added

peptidoglycan turnover http://purl.obolibrary.org/obo/GO_0009254

Removed

Added

positive regulation of heparan sulfate proteoglycan biosynthetic process http://purl.obolibrary.org/obo/GO_0010909

Removed

Added

proteoglycan biosynthetic process http://purl.obolibrary.org/obo/GO_0030166

Removed

Added

proteoglycan catabolic process http://purl.obolibrary.org/obo/GO_0030167

Removed

Added

proteoglycan metabolic process http://purl.obolibrary.org/obo/GO_0006029

Removed

Added

regulation of heparan sulfate proteoglycan biosynthetic process http://purl.obolibrary.org/obo/GO_0010908

Removed

Added

@sjm41 sjm41 merged commit 832f6c5 into master Feb 21, 2025
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