From 67470b16a53ac7cf331de777081d34ad2f8108c3 Mon Sep 17 00:00:00 2001 From: balhoff Date: Tue, 11 Feb 2025 14:51:51 +0000 Subject: [PATCH] [create-pull-request] automated change --- docs/patterns/negative_regulation.md | 2 +- docs/patterns/positive_regulation.md | 2 +- src/design_patterns/biosynthetic_process.tsv | 4 +--- src/design_patterns/catabolic_process.tsv | 2 +- src/design_patterns/cc_assembly.tsv | 2 +- src/design_patterns/metabolic_process.tsv | 4 +--- src/design_patterns/negative_regulation.tsv | 4 ++-- src/design_patterns/occursIn.tsv | 1 - src/design_patterns/positive_regulation.tsv | 2 +- .../protein_complex_by_activity.tsv | 2 +- src/design_patterns/regulation.tsv | 2 +- src/design_patterns/regulation_by.tsv | 2 +- src/ontology/imports/go-pattern-conformance.ttl | 15 --------------- 13 files changed, 12 insertions(+), 32 deletions(-) diff --git a/docs/patterns/negative_regulation.md b/docs/patterns/negative_regulation.md index 7f621855d9..ad8a667efe 100644 --- a/docs/patterns/negative_regulation.md +++ b/docs/patterns/negative_regulation.md @@ -48,7 +48,7 @@ This pattern is for classes representing types of negative regulation differenti |:--|:--|:--|:--| | [http://purl.obolibrary.org/obo/GO_0002085](http://purl.obolibrary.org/obo/GO_0002085) | inhibition of neuroepithelial cell differentiation | [http://purl.obolibrary.org/obo/GO_0060563](http://purl.obolibrary.org/obo/GO_0060563) | neuroepithelial cell differentiation | | [http://purl.obolibrary.org/obo/GO_0140540](http://purl.obolibrary.org/obo/GO_0140540) | negative regulation melanotic encapsulation of foreign target | [http://purl.obolibrary.org/obo/GO_0035011](http://purl.obolibrary.org/obo/GO_0035011) | melanotic encapsulation of foreign target | -| [http://purl.obolibrary.org/obo/GO_1905013](http://purl.obolibrary.org/obo/GO_1905013) | negative regulation of 'de novo' NAD biosynthetic process from tryptophan | [http://purl.obolibrary.org/obo/GO_0034354](http://purl.obolibrary.org/obo/GO_0034354) | 'de novo' NAD biosynthetic process from tryptophan | +| [http://purl.obolibrary.org/obo/GO_1905013](http://purl.obolibrary.org/obo/GO_1905013) | negative regulation of 'de novo' NAD biosynthetic process from L-tryptophan | [http://purl.obolibrary.org/obo/GO_0034354](http://purl.obolibrary.org/obo/GO_0034354) | 'de novo' NAD biosynthetic process from L-tryptophan | | [http://purl.obolibrary.org/obo/GO_1900693](http://purl.obolibrary.org/obo/GO_1900693) | negative regulation of (+)-kotanin biosynthetic process | [http://purl.obolibrary.org/obo/GO_1900596](http://purl.obolibrary.org/obo/GO_1900596) | (+)-kotanin biosynthetic process | | [http://purl.obolibrary.org/obo/GO_0060636](http://purl.obolibrary.org/obo/GO_0060636) | negative regulation of (1->3)-beta-D-glucan biosynthetic process | [http://purl.obolibrary.org/obo/GO_0006075](http://purl.obolibrary.org/obo/GO_0006075) | (1->3)-beta-D-glucan biosynthetic process | diff --git a/docs/patterns/positive_regulation.md b/docs/patterns/positive_regulation.md index 9c13a1c00f..657be73c52 100644 --- a/docs/patterns/positive_regulation.md +++ b/docs/patterns/positive_regulation.md @@ -47,7 +47,7 @@ This pattern is for classes representing types of positive regulation differenti | defined_class | defined_class_label | entity | entity_label | |:--|:--|:--|:--| | [http://purl.obolibrary.org/obo/GO_0075294](http://purl.obolibrary.org/obo/GO_0075294) | positive regulation by symbiont of entry into host | [http://purl.obolibrary.org/obo/GO_0044409](http://purl.obolibrary.org/obo/GO_0044409) | symbiont entry into host | -| [http://purl.obolibrary.org/obo/GO_1905014](http://purl.obolibrary.org/obo/GO_1905014) | positive regulation of 'de novo' NAD biosynthetic process from tryptophan | [http://purl.obolibrary.org/obo/GO_0034354](http://purl.obolibrary.org/obo/GO_0034354) | 'de novo' NAD biosynthetic process from tryptophan | +| [http://purl.obolibrary.org/obo/GO_1905014](http://purl.obolibrary.org/obo/GO_1905014) | positive regulation of 'de novo' NAD biosynthetic process from L-tryptophan | [http://purl.obolibrary.org/obo/GO_0034354](http://purl.obolibrary.org/obo/GO_0034354) | 'de novo' NAD biosynthetic process from L-tryptophan | | [http://purl.obolibrary.org/obo/GO_1900694](http://purl.obolibrary.org/obo/GO_1900694) | positive regulation of (+)-kotanin biosynthetic process | [http://purl.obolibrary.org/obo/GO_1900596](http://purl.obolibrary.org/obo/GO_1900596) | (+)-kotanin biosynthetic process | | [http://purl.obolibrary.org/obo/GO_0060635](http://purl.obolibrary.org/obo/GO_0060635) | positive regulation of (1->3)-beta-D-glucan biosynthetic process | [http://purl.obolibrary.org/obo/GO_0006075](http://purl.obolibrary.org/obo/GO_0006075) | (1->3)-beta-D-glucan biosynthetic process | | [http://purl.obolibrary.org/obo/GO_1902274](http://purl.obolibrary.org/obo/GO_1902274) | positive regulation of (R)-carnitine transmembrane transport | [http://purl.obolibrary.org/obo/GO_1902270](http://purl.obolibrary.org/obo/GO_1902270) | (R)-carnitine transmembrane transport | diff --git a/src/design_patterns/biosynthetic_process.tsv b/src/design_patterns/biosynthetic_process.tsv index c92a5487e3..9e60f459e6 100644 --- a/src/design_patterns/biosynthetic_process.tsv +++ b/src/design_patterns/biosynthetic_process.tsv @@ -151,7 +151,7 @@ http://purl.obolibrary.org/obo/GO_0006045 N-acetylglucosamine biosynthetic proce http://purl.obolibrary.org/obo/GO_0006052 N-acetylmannosamine biosynthetic process http://purl.obolibrary.org/obo/CHEBI_62164 N-acetylmannosamine http://purl.obolibrary.org/obo/GO_0046380 N-acetylneuraminate biosynthetic process http://purl.obolibrary.org/obo/CHEBI_35418 N-acetylneuraminate http://purl.obolibrary.org/obo/GO_0052709 N-alpha,N-alpha,N-alpha-trimethyl-L-histidine biosynthetic process http://purl.obolibrary.org/obo/CHEBI_15781 N(alpha),N(alpha),N(alpha)-trimethyl-L-histidine -http://purl.obolibrary.org/obo/GO_0009435 NAD biosynthetic process http://purl.obolibrary.org/obo/CHEBI_13389 NAD +http://purl.obolibrary.org/obo/GO_0009435 NAD biosynthetic process http://purl.obolibrary.org/obo/CHEBI_57540 NAD(1-) http://purl.obolibrary.org/obo/GO_0006741 NADP biosynthetic process http://purl.obolibrary.org/obo/CHEBI_58349 NADP(3-) http://purl.obolibrary.org/obo/GO_0140875 PR-toxin biosynthetic process http://purl.obolibrary.org/obo/CHEBI_7883 PR-toxin http://purl.obolibrary.org/obo/GO_0006556 S-adenosylmethionine biosynthetic process http://purl.obolibrary.org/obo/CHEBI_59789 S-adenosyl-L-methionine zwitterion @@ -322,7 +322,6 @@ http://purl.obolibrary.org/obo/GO_0033305 chlorophyll a biosynthetic process htt http://purl.obolibrary.org/obo/GO_0015995 chlorophyll biosynthetic process http://purl.obolibrary.org/obo/CHEBI_28966 chlorophyll http://purl.obolibrary.org/obo/GO_0006695 cholesterol biosynthetic process http://purl.obolibrary.org/obo/CHEBI_16113 cholesterol http://purl.obolibrary.org/obo/GO_0042425 choline biosynthetic process http://purl.obolibrary.org/obo/CHEBI_15354 choline -http://purl.obolibrary.org/obo/GO_0030206 chondroitin sulfate biosynthetic process http://purl.obolibrary.org/obo/CHEBI_37397 chondroitin sulfate http://purl.obolibrary.org/obo/GO_0050650 chondroitin sulfate proteoglycan biosynthetic process http://purl.obolibrary.org/obo/CHEBI_26349 proteochondroitin sulfate http://purl.obolibrary.org/obo/GO_0009423 chorismate biosynthetic process http://purl.obolibrary.org/obo/CHEBI_29748 chorismate(2-) http://purl.obolibrary.org/obo/GO_0042858 chrysobactin biosynthetic process http://purl.obolibrary.org/obo/CHEBI_61345 chrysobactin @@ -399,7 +398,6 @@ http://purl.obolibrary.org/obo/GO_0006017 deoxyribose 1,5-bisphosphate biosynthe http://purl.obolibrary.org/obo/GO_0046385 deoxyribose phosphate biosynthetic process http://purl.obolibrary.org/obo/CHEBI_19569 2-deoxyribose phosphate http://purl.obolibrary.org/obo/GO_0046097 deoxyuridine biosynthetic process http://purl.obolibrary.org/obo/CHEBI_16450 2'-deoxyuridine http://purl.obolibrary.org/obo/GO_0050763 depsipeptide biosynthetic process http://purl.obolibrary.org/obo/CHEBI_23643 depsipeptide -http://purl.obolibrary.org/obo/GO_0030208 dermatan sulfate biosynthetic process http://purl.obolibrary.org/obo/CHEBI_58465 dermatan sulfate polyanion http://purl.obolibrary.org/obo/GO_0050651 dermatan sulfate proteoglycan biosynthetic process http://purl.obolibrary.org/obo/CHEBI_64602 dermatan sulfate proteoglycan http://purl.obolibrary.org/obo/GO_0019351 dethiobiotin biosynthetic process http://purl.obolibrary.org/obo/CHEBI_57861 dethiobiotin(1-) http://purl.obolibrary.org/obo/GO_0010132 dhurrin biosynthetic process http://purl.obolibrary.org/obo/CHEBI_27826 (S)-4-hydroxymandelonitrile beta-D-glucoside diff --git a/src/design_patterns/catabolic_process.tsv b/src/design_patterns/catabolic_process.tsv index 7aca3c520c..c10fd7e487 100644 --- a/src/design_patterns/catabolic_process.tsv +++ b/src/design_patterns/catabolic_process.tsv @@ -132,7 +132,7 @@ http://purl.obolibrary.org/obo/GO_0097173 N-acetylmuramic acid catabolic process http://purl.obolibrary.org/obo/GO_0019262 N-acetylneuraminate catabolic process http://purl.obolibrary.org/obo/CHEBI_35418 N-acetylneuraminate http://purl.obolibrary.org/obo/GO_0052710 N-alpha,N-alpha,N-alpha-trimethyl-L-histidine catabolic process http://purl.obolibrary.org/obo/CHEBI_15781 N(alpha),N(alpha),N(alpha)-trimethyl-L-histidine http://purl.obolibrary.org/obo/GO_0042202 N-cyclopropylmelamine catabolic process http://purl.obolibrary.org/obo/CHEBI_30260 cyromazine -http://purl.obolibrary.org/obo/GO_0019677 NAD catabolic process http://purl.obolibrary.org/obo/CHEBI_13389 NAD +http://purl.obolibrary.org/obo/GO_0019677 NAD catabolic process http://purl.obolibrary.org/obo/CHEBI_57540 NAD(1-) http://purl.obolibrary.org/obo/GO_0006742 NADP catabolic process http://purl.obolibrary.org/obo/CHEBI_58349 NADP(3-) http://purl.obolibrary.org/obo/GO_0010304 PSII associated light-harvesting complex II catabolic process http://purl.obolibrary.org/obo/GO_0009517 PSII associated light-harvesting complex II http://purl.obolibrary.org/obo/GO_0006401 RNA catabolic process http://purl.obolibrary.org/obo/CHEBI_33697 ribonucleic acid diff --git a/src/design_patterns/cc_assembly.tsv b/src/design_patterns/cc_assembly.tsv index f1ed68d0fe..108451ab8d 100644 --- a/src/design_patterns/cc_assembly.tsv +++ b/src/design_patterns/cc_assembly.tsv @@ -126,7 +126,7 @@ http://purl.obolibrary.org/obo/GO_0048041 focal adhesion assembly http://purl.ob http://purl.obolibrary.org/obo/GO_0001732 formation of cytoplasmic translation initiation complex http://purl.obolibrary.org/obo/GO_0070992 translation initiation complex http://purl.obolibrary.org/obo/GO_0001325 formation of extrachromosomal circular DNA http://purl.obolibrary.org/obo/GO_0005727 extrachromosomal circular DNA http://purl.obolibrary.org/obo/GO_0001677 formation of translation initiation ternary complex http://purl.obolibrary.org/obo/GO_0044207 translation initiation ternary complex -http://purl.obolibrary.org/obo/GO_0001731 formation of translation preinitiation complex http://purl.obolibrary.org/obo/GO_0070993 translation preinitiation complex +http://purl.obolibrary.org/obo/GO_0001731 formation of translation preinitiation complex http://purl.obolibrary.org/obo/GO_0070993 cytosolic translation preinitiation complex http://purl.obolibrary.org/obo/GO_0070649 formin-nucleated actin cable assembly http://purl.obolibrary.org/obo/GO_0070648 formin-nucleated actin cable http://purl.obolibrary.org/obo/GO_0071940 fungal-type cell wall assembly http://purl.obolibrary.org/obo/GO_0009277 fungal-type cell wall http://purl.obolibrary.org/obo/GO_1902481 gamma-tubulin complex assembly http://purl.obolibrary.org/obo/GO_0000930 gamma-tubulin complex diff --git a/src/design_patterns/metabolic_process.tsv b/src/design_patterns/metabolic_process.tsv index 97ea18d8a7..057c5e0d27 100644 --- a/src/design_patterns/metabolic_process.tsv +++ b/src/design_patterns/metabolic_process.tsv @@ -187,7 +187,7 @@ http://purl.obolibrary.org/obo/GO_0070291 N-acylethanolamine metabolic process h http://purl.obolibrary.org/obo/GO_0070292 N-acylphosphatidylethanolamine metabolic process http://purl.obolibrary.org/obo/CHEBI_62537 N-acylphosphatidylethanolamine(1-) http://purl.obolibrary.org/obo/GO_0052708 N-alpha,N-alpha,N-alpha-trimethyl-L-histidine metabolic process http://purl.obolibrary.org/obo/CHEBI_15781 N(alpha),N(alpha),N(alpha)-trimethyl-L-histidine http://purl.obolibrary.org/obo/GO_0042201 N-cyclopropylmelamine metabolic process http://purl.obolibrary.org/obo/CHEBI_30260 cyromazine -http://purl.obolibrary.org/obo/GO_0019674 NAD metabolic process http://purl.obolibrary.org/obo/CHEBI_13389 NAD +http://purl.obolibrary.org/obo/GO_0019674 NAD metabolic process http://purl.obolibrary.org/obo/CHEBI_57540 NAD(1-) http://purl.obolibrary.org/obo/GO_0006734 NADH metabolic process http://purl.obolibrary.org/obo/CHEBI_57945 NADH(2-) http://purl.obolibrary.org/obo/GO_0006739 NADP metabolic process http://purl.obolibrary.org/obo/CHEBI_58349 NADP(3-) http://purl.obolibrary.org/obo/GO_0016070 RNA metabolic process http://purl.obolibrary.org/obo/CHEBI_33697 ribonucleic acid @@ -392,7 +392,6 @@ http://purl.obolibrary.org/obo/GO_0052644 chlorophyllide a metabolic process htt http://purl.obolibrary.org/obo/GO_0052643 chlorophyllide metabolic process http://purl.obolibrary.org/obo/CHEBI_38206 chlorophyllide http://purl.obolibrary.org/obo/GO_0008203 cholesterol metabolic process http://purl.obolibrary.org/obo/CHEBI_16113 cholesterol http://purl.obolibrary.org/obo/GO_0019695 choline metabolic process http://purl.obolibrary.org/obo/CHEBI_15354 choline -http://purl.obolibrary.org/obo/GO_0030204 chondroitin sulfate metabolic process http://purl.obolibrary.org/obo/CHEBI_37397 chondroitin sulfate http://purl.obolibrary.org/obo/GO_0050654 chondroitin sulfate proteoglycan metabolic process http://purl.obolibrary.org/obo/CHEBI_26349 proteochondroitin sulfate http://purl.obolibrary.org/obo/GO_0046417 chorismate metabolic process http://purl.obolibrary.org/obo/CHEBI_29748 chorismate(2-) http://purl.obolibrary.org/obo/GO_0042857 chrysobactin metabolic process http://purl.obolibrary.org/obo/CHEBI_61345 chrysobactin @@ -480,7 +479,6 @@ http://purl.obolibrary.org/obo/GO_0046389 deoxyribose 5-phosphate metabolic proc http://purl.obolibrary.org/obo/GO_0019692 deoxyribose phosphate metabolic process http://purl.obolibrary.org/obo/CHEBI_19569 2-deoxyribose phosphate http://purl.obolibrary.org/obo/GO_0046096 deoxyuridine metabolic process http://purl.obolibrary.org/obo/CHEBI_16450 2'-deoxyuridine http://purl.obolibrary.org/obo/GO_0050761 depsipeptide metabolic process http://purl.obolibrary.org/obo/CHEBI_23643 depsipeptide -http://purl.obolibrary.org/obo/GO_0030205 dermatan sulfate metabolic process http://purl.obolibrary.org/obo/CHEBI_58465 dermatan sulfate polyanion http://purl.obolibrary.org/obo/GO_0050655 dermatan sulfate proteoglycan metabolic process http://purl.obolibrary.org/obo/CHEBI_64602 dermatan sulfate proteoglycan http://purl.obolibrary.org/obo/GO_0046450 dethiobiotin metabolic process http://purl.obolibrary.org/obo/CHEBI_57861 dethiobiotin(1-) http://purl.obolibrary.org/obo/GO_0052778 diacetylchitobiose metabolic process http://purl.obolibrary.org/obo/CHEBI_28681 N,N'-diacetylchitobiose diff --git a/src/design_patterns/negative_regulation.tsv b/src/design_patterns/negative_regulation.tsv index ff3ad6f740..d9e488eb5f 100644 --- a/src/design_patterns/negative_regulation.tsv +++ b/src/design_patterns/negative_regulation.tsv @@ -1,7 +1,7 @@ defined_class defined_class_label entity entity_label http://purl.obolibrary.org/obo/GO_0002085 inhibition of neuroepithelial cell differentiation http://purl.obolibrary.org/obo/GO_0060563 neuroepithelial cell differentiation http://purl.obolibrary.org/obo/GO_0140540 negative regulation melanotic encapsulation of foreign target http://purl.obolibrary.org/obo/GO_0035011 melanotic encapsulation of foreign target -http://purl.obolibrary.org/obo/GO_1905013 negative regulation of 'de novo' NAD biosynthetic process from tryptophan http://purl.obolibrary.org/obo/GO_0034354 'de novo' NAD biosynthetic process from tryptophan +http://purl.obolibrary.org/obo/GO_1905013 negative regulation of 'de novo' NAD biosynthetic process from L-tryptophan http://purl.obolibrary.org/obo/GO_0034354 'de novo' NAD biosynthetic process from L-tryptophan http://purl.obolibrary.org/obo/GO_1900693 negative regulation of (+)-kotanin biosynthetic process http://purl.obolibrary.org/obo/GO_1900596 (+)-kotanin biosynthetic process http://purl.obolibrary.org/obo/GO_0060636 negative regulation of (1->3)-beta-D-glucan biosynthetic process http://purl.obolibrary.org/obo/GO_0006075 (1->3)-beta-D-glucan biosynthetic process http://purl.obolibrary.org/obo/GO_1902273 negative regulation of (R)-carnitine transmembrane transport http://purl.obolibrary.org/obo/GO_1902270 (R)-carnitine transmembrane transport @@ -169,7 +169,7 @@ http://purl.obolibrary.org/obo/GO_0051253 negative regulation of RNA metabolic p http://purl.obolibrary.org/obo/GO_1903026 negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding http://purl.obolibrary.org/obo/GO_0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding http://purl.obolibrary.org/obo/GO_0017055 negative regulation of RNA polymerase II transcription preinitiation complex assembly http://purl.obolibrary.org/obo/GO_0051123 RNA polymerase II preinitiation complex assembly http://purl.obolibrary.org/obo/GO_0033119 negative regulation of RNA splicing http://purl.obolibrary.org/obo/GO_0008380 RNA splicing -http://purl.obolibrary.org/obo/GO_1900260 negative regulation of RNA-dependent RNA polymerase activity http://purl.obolibrary.org/obo/GO_0003968 RNA-dependent RNA polymerase activity +http://purl.obolibrary.org/obo/GO_1900260 negative regulation of RNA-dependent RNA polymerase activity http://purl.obolibrary.org/obo/GO_0003968 RNA-directed RNA polymerase activity http://purl.obolibrary.org/obo/GO_0035021 negative regulation of Rac protein signal transduction http://purl.obolibrary.org/obo/GO_0016601 Rac protein signal transduction http://purl.obolibrary.org/obo/GO_0046580 negative regulation of Ras protein signal transduction http://purl.obolibrary.org/obo/GO_0007265 Ras protein signal transduction http://purl.obolibrary.org/obo/GO_0035024 negative regulation of Rho protein signal transduction http://purl.obolibrary.org/obo/GO_0007266 Rho protein signal transduction diff --git a/src/design_patterns/occursIn.tsv b/src/design_patterns/occursIn.tsv index 5fe61dc446..f9545f57a2 100644 --- a/src/design_patterns/occursIn.tsv +++ b/src/design_patterns/occursIn.tsv @@ -184,7 +184,6 @@ http://purl.obolibrary.org/obo/GO_0007006 mitochondrial membrane organization ht http://purl.obolibrary.org/obo/GO_0070155 mitochondrial methionyl-tRNA aminoacylation http://purl.obolibrary.org/obo/GO_0005739 mitochondrion http://purl.obolibrary.org/obo/GO_0006431 methionyl-tRNA aminoacylation http://purl.obolibrary.org/obo/GO_0090144 mitochondrial nucleoid organization http://purl.obolibrary.org/obo/GO_0005739 mitochondrion http://purl.obolibrary.org/obo/GO_0090143 nucleoid organization http://purl.obolibrary.org/obo/GO_0070156 mitochondrial phenylalanyl-tRNA aminoacylation http://purl.obolibrary.org/obo/GO_0005739 mitochondrion http://purl.obolibrary.org/obo/GO_0006432 phenylalanyl-tRNA aminoacylation -http://purl.obolibrary.org/obo/GO_0140040 mitochondrial polycistronic RNA processing http://purl.obolibrary.org/obo/GO_0005739 mitochondrion http://purl.obolibrary.org/obo/GO_0031426 polycistronic mRNA processing http://purl.obolibrary.org/obo/GO_0070157 mitochondrial prolyl-tRNA aminoacylation http://purl.obolibrary.org/obo/GO_0005739 mitochondrion http://purl.obolibrary.org/obo/GO_0006433 prolyl-tRNA aminoacylation http://purl.obolibrary.org/obo/GO_0035694 mitochondrial protein catabolic process http://purl.obolibrary.org/obo/GO_0005739 mitochondrion http://purl.obolibrary.org/obo/GO_0030163 protein catabolic process http://purl.obolibrary.org/obo/GO_0034982 mitochondrial protein processing http://purl.obolibrary.org/obo/GO_0005739 mitochondrion http://purl.obolibrary.org/obo/GO_0016485 protein processing diff --git a/src/design_patterns/positive_regulation.tsv b/src/design_patterns/positive_regulation.tsv index d5b7836d89..445e3d5777 100644 --- a/src/design_patterns/positive_regulation.tsv +++ b/src/design_patterns/positive_regulation.tsv @@ -1,6 +1,6 @@ defined_class defined_class_label entity entity_label http://purl.obolibrary.org/obo/GO_0075294 positive regulation by symbiont of entry into host http://purl.obolibrary.org/obo/GO_0044409 symbiont entry into host -http://purl.obolibrary.org/obo/GO_1905014 positive regulation of 'de novo' NAD biosynthetic process from tryptophan http://purl.obolibrary.org/obo/GO_0034354 'de novo' NAD biosynthetic process from tryptophan +http://purl.obolibrary.org/obo/GO_1905014 positive regulation of 'de novo' NAD biosynthetic process from L-tryptophan http://purl.obolibrary.org/obo/GO_0034354 'de novo' NAD biosynthetic process from L-tryptophan http://purl.obolibrary.org/obo/GO_1900694 positive regulation of (+)-kotanin biosynthetic process http://purl.obolibrary.org/obo/GO_1900596 (+)-kotanin biosynthetic process http://purl.obolibrary.org/obo/GO_0060635 positive regulation of (1->3)-beta-D-glucan biosynthetic process http://purl.obolibrary.org/obo/GO_0006075 (1->3)-beta-D-glucan biosynthetic process http://purl.obolibrary.org/obo/GO_1902274 positive regulation of (R)-carnitine transmembrane transport http://purl.obolibrary.org/obo/GO_1902270 (R)-carnitine transmembrane transport diff --git a/src/design_patterns/protein_complex_by_activity.tsv b/src/design_patterns/protein_complex_by_activity.tsv index 517b022d34..3790a9ecd1 100644 --- a/src/design_patterns/protein_complex_by_activity.tsv +++ b/src/design_patterns/protein_complex_by_activity.tsv @@ -35,7 +35,7 @@ http://purl.obolibrary.org/obo/GO_0030964 NADH dehydrogenase complex http://purl http://purl.obolibrary.org/obo/GO_0043020 NADPH oxidase complex http://purl.obolibrary.org/obo/GO_0016175 superoxide-generating NAD(P)H oxidase activity http://purl.obolibrary.org/obo/GO_0017146 NMDA selective glutamate receptor complex http://purl.obolibrary.org/obo/GO_0004972 NMDA glutamate receptor activity http://purl.obolibrary.org/obo/GO_0036396 RNA N6-methyladenosine methyltransferase complex http://purl.obolibrary.org/obo/GO_0008174 mRNA methyltransferase activity -http://purl.obolibrary.org/obo/GO_0031379 RNA-directed RNA polymerase complex http://purl.obolibrary.org/obo/GO_0003968 RNA-dependent RNA polymerase activity +http://purl.obolibrary.org/obo/GO_0031379 RNA-directed RNA polymerase complex http://purl.obolibrary.org/obo/GO_0003968 RNA-directed RNA polymerase activity http://purl.obolibrary.org/obo/GO_0005968 Rab-protein geranylgeranyltransferase complex http://purl.obolibrary.org/obo/GO_0004663 Rab geranylgeranyltransferase activity http://purl.obolibrary.org/obo/GO_0031510 SUMO activating enzyme complex http://purl.obolibrary.org/obo/GO_0019948 SUMO activating enzyme activity http://purl.obolibrary.org/obo/GO_0070622 UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase complex http://purl.obolibrary.org/obo/GO_0003976 UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity diff --git a/src/design_patterns/regulation.tsv b/src/design_patterns/regulation.tsv index 82114491cc..068b6bdd75 100644 --- a/src/design_patterns/regulation.tsv +++ b/src/design_patterns/regulation.tsv @@ -6,7 +6,7 @@ http://purl.obolibrary.org/obo/GO_0075030 modulation of formation of symbiont ge http://purl.obolibrary.org/obo/GO_0075054 modulation of penetration peg formation http://purl.obolibrary.org/obo/GO_0075053 penetration peg formation http://purl.obolibrary.org/obo/GO_0075215 modulation of spore encystment on host http://purl.obolibrary.org/obo/GO_0075214 spore encystment http://purl.obolibrary.org/obo/GO_0075198 modulation of symbiont haustorium neck formation for entry into host http://purl.obolibrary.org/obo/GO_0075197 haustorium neck formation -http://purl.obolibrary.org/obo/GO_1905012 regulation of 'de novo' NAD biosynthetic process from tryptophan http://purl.obolibrary.org/obo/GO_0034354 'de novo' NAD biosynthetic process from tryptophan +http://purl.obolibrary.org/obo/GO_1905012 regulation of 'de novo' NAD biosynthetic process from L-tryptophan http://purl.obolibrary.org/obo/GO_0034354 'de novo' NAD biosynthetic process from L-tryptophan http://purl.obolibrary.org/obo/GO_1900692 regulation of (+)-kotanin biosynthetic process http://purl.obolibrary.org/obo/GO_1900596 (+)-kotanin biosynthetic process http://purl.obolibrary.org/obo/GO_0070606 regulation of (1->3)-alpha-glucan biosynthetic process http://purl.obolibrary.org/obo/GO_0070596 (1->3)-alpha-glucan biosynthetic process http://purl.obolibrary.org/obo/GO_0070605 regulation of (1->3)-alpha-glucan metabolic process http://purl.obolibrary.org/obo/GO_0070595 (1->3)-alpha-glucan metabolic process diff --git a/src/design_patterns/regulation_by.tsv b/src/design_patterns/regulation_by.tsv index 74ce33960b..4affc96836 100644 --- a/src/design_patterns/regulation_by.tsv +++ b/src/design_patterns/regulation_by.tsv @@ -12,7 +12,7 @@ http://purl.obolibrary.org/obo/GO_0098828 modulation of inhibitory postsynaptic http://purl.obolibrary.org/obo/GO_0075054 modulation of penetration peg formation http://purl.obolibrary.org/obo/GO_0065007 biological regulation http://purl.obolibrary.org/obo/GO_0075053 penetration peg formation http://purl.obolibrary.org/obo/GO_0075215 modulation of spore encystment on host http://purl.obolibrary.org/obo/GO_0065007 biological regulation http://purl.obolibrary.org/obo/GO_0075214 spore encystment http://purl.obolibrary.org/obo/GO_0075198 modulation of symbiont haustorium neck formation for entry into host http://purl.obolibrary.org/obo/GO_0065007 biological regulation http://purl.obolibrary.org/obo/GO_0075197 haustorium neck formation -http://purl.obolibrary.org/obo/GO_1905012 regulation of 'de novo' NAD biosynthetic process from tryptophan http://purl.obolibrary.org/obo/GO_0065007 biological regulation http://purl.obolibrary.org/obo/GO_0034354 'de novo' NAD biosynthetic process from tryptophan +http://purl.obolibrary.org/obo/GO_1905012 regulation of 'de novo' NAD biosynthetic process from L-tryptophan http://purl.obolibrary.org/obo/GO_0065007 biological regulation http://purl.obolibrary.org/obo/GO_0034354 'de novo' NAD biosynthetic process from L-tryptophan http://purl.obolibrary.org/obo/GO_1900692 regulation of (+)-kotanin biosynthetic process http://purl.obolibrary.org/obo/GO_0065007 biological regulation http://purl.obolibrary.org/obo/GO_1900596 (+)-kotanin biosynthetic process http://purl.obolibrary.org/obo/GO_0070606 regulation of (1->3)-alpha-glucan biosynthetic process http://purl.obolibrary.org/obo/GO_0065007 biological regulation http://purl.obolibrary.org/obo/GO_0070596 (1->3)-alpha-glucan biosynthetic process http://purl.obolibrary.org/obo/GO_0070605 regulation of (1->3)-alpha-glucan metabolic process http://purl.obolibrary.org/obo/GO_0065007 biological regulation http://purl.obolibrary.org/obo/GO_0070595 (1->3)-alpha-glucan metabolic process diff --git a/src/ontology/imports/go-pattern-conformance.ttl b/src/ontology/imports/go-pattern-conformance.ttl index 654e63a457..ac37442a31 100644 --- a/src/ontology/imports/go-pattern-conformance.ttl +++ b/src/ontology/imports/go-pattern-conformance.ttl @@ -13065,21 +13065,9 @@ . - . - - - . - - - . - - . - . - - . @@ -38047,9 +38035,6 @@ . - . - - , .