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[create-pull-request] automated change (#29276)
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Co-authored-by: balhoff <balhoff@users.noreply.github.com>
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ontobot and balhoff authored Dec 1, 2024
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2 changes: 1 addition & 1 deletion docs/patterns/involved_in_x_y.md
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Expand Up @@ -30,7 +30,7 @@ TODO

## Equivalent to

`{process1}` and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some `{process2}`)
`{process1}` and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some `{process2}`)



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2 changes: 1 addition & 1 deletion docs/patterns/membrane_region.md
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Expand Up @@ -34,7 +34,7 @@ TODO

## Subclass of

[membrane](http://purl.obolibrary.org/obo/GO_0016020) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some `{encompassing_membrane}`) and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some `{intersecting_region}`)
[membrane](http://purl.obolibrary.org/obo/GO_0016020) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some `{encompassing_membrane}`) and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some `{intersecting_region}`)



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2 changes: 1 addition & 1 deletion docs/patterns/multi_organism_process.md
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Expand Up @@ -29,7 +29,7 @@ TODO

## Equivalent to

`{process}` and ([bearer of](http://purl.obolibrary.org/obo/RO_0000053) some [PATO_0002486](http://purl.obolibrary.org/obo/PATO_0002486))
`{process}` and ([has characteristic](http://purl.obolibrary.org/obo/RO_0000053) some [PATO_0002486](http://purl.obolibrary.org/obo/PATO_0002486))



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2 changes: 1 addition & 1 deletion docs/patterns/part_of_cell_component.md
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Expand Up @@ -30,7 +30,7 @@ TODO

## Equivalent to

`{component1}` and ([part of](http://purl.obolibrary.org/obo/BFO_0000050) some `{component2}`)
`{component1}` and ([part_of](http://purl.obolibrary.org/obo/BFO_0000050) some `{component2}`)



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2 changes: 1 addition & 1 deletion docs/patterns/single_organism_process.md
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Expand Up @@ -29,7 +29,7 @@ TODO

## Equivalent to

`{process}` and ([bearer of](http://purl.obolibrary.org/obo/RO_0000053) some [single organismal process quality](http://purl.obolibrary.org/obo/PATO_0002487))
`{process}` and ([has characteristic](http://purl.obolibrary.org/obo/RO_0000053) some [single organismal process quality](http://purl.obolibrary.org/obo/PATO_0002487))



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2 changes: 1 addition & 1 deletion src/design_patterns/biosynthetic_process.tsv
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Expand Up @@ -322,6 +322,7 @@ http://purl.obolibrary.org/obo/GO_0015995 chlorophyll biosynthetic process http:
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
http://purl.obolibrary.org/obo/GO_0062032 cichorine biosynthetic process http://purl.obolibrary.org/obo/CHEBI_64977 cichorine
Expand Down Expand Up @@ -494,7 +495,6 @@ http://purl.obolibrary.org/obo/GO_0046357 galactarate biosynthetic process http:
http://purl.obolibrary.org/obo/GO_0019403 galactitol biosynthetic process http://purl.obolibrary.org/obo/CHEBI_16813 galactitol
http://purl.obolibrary.org/obo/GO_0019375 galactolipid biosynthetic process http://purl.obolibrary.org/obo/CHEBI_5254 galactolipid
http://purl.obolibrary.org/obo/GO_0051070 galactomannan biosynthetic process http://purl.obolibrary.org/obo/CHEBI_27680 galactomannan
http://purl.obolibrary.org/obo/GO_0006025 galactosaminoglycan biosynthetic process http://purl.obolibrary.org/obo/CHEBI_24158 galactosaminoglycan
http://purl.obolibrary.org/obo/GO_0046369 galactose biosynthetic process http://purl.obolibrary.org/obo/CHEBI_28260 galactose
http://purl.obolibrary.org/obo/GO_0006682 galactosylceramide biosynthetic process http://purl.obolibrary.org/obo/CHEBI_36498 galactosylceramide
http://purl.obolibrary.org/obo/GO_0062191 galactoxylomannan biosynthetic process http://purl.obolibrary.org/obo/CHEBI_145656 galactoxylomannan
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1 change: 0 additions & 1 deletion src/design_patterns/catabolic_process.tsv
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Expand Up @@ -436,7 +436,6 @@ http://purl.obolibrary.org/obo/GO_2000885 galactoglucomannan catabolic process h
http://purl.obolibrary.org/obo/GO_0019376 galactolipid catabolic process http://purl.obolibrary.org/obo/CHEBI_5254 galactolipid
http://purl.obolibrary.org/obo/GO_0051682 galactomannan catabolic process http://purl.obolibrary.org/obo/CHEBI_27680 galactomannan
http://purl.obolibrary.org/obo/GO_0019584 galactonate catabolic process http://purl.obolibrary.org/obo/CHEBI_24148 galactonate
http://purl.obolibrary.org/obo/GO_0006028 galactosaminoglycan catabolic process http://purl.obolibrary.org/obo/CHEBI_24158 galactosaminoglycan
http://purl.obolibrary.org/obo/GO_0019388 galactose catabolic process http://purl.obolibrary.org/obo/CHEBI_28260 galactose
http://purl.obolibrary.org/obo/GO_0006683 galactosylceramide catabolic process http://purl.obolibrary.org/obo/CHEBI_36498 galactosylceramide
http://purl.obolibrary.org/obo/GO_0046397 galacturonate catabolic process http://purl.obolibrary.org/obo/CHEBI_24175 galacturonate
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3 changes: 2 additions & 1 deletion src/design_patterns/metabolic_process.tsv
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Expand Up @@ -392,6 +392,7 @@ http://purl.obolibrary.org/obo/GO_0052643 chlorophyllide metabolic process http:
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
http://purl.obolibrary.org/obo/GO_0009801 cinnamic acid ester metabolic process http://purl.obolibrary.org/obo/CHEBI_36087 cinnamate ester
Expand Down Expand Up @@ -596,7 +597,6 @@ http://purl.obolibrary.org/obo/GO_0010392 galactoglucomannan metabolic process h
http://purl.obolibrary.org/obo/GO_0019374 galactolipid metabolic process http://purl.obolibrary.org/obo/CHEBI_5254 galactolipid
http://purl.obolibrary.org/obo/GO_0051069 galactomannan metabolic process http://purl.obolibrary.org/obo/CHEBI_27680 galactomannan
http://purl.obolibrary.org/obo/GO_0019583 galactonate metabolic process http://purl.obolibrary.org/obo/CHEBI_24148 galactonate
http://purl.obolibrary.org/obo/GO_0046350 galactosaminoglycan metabolic process http://purl.obolibrary.org/obo/CHEBI_24158 galactosaminoglycan
http://purl.obolibrary.org/obo/GO_0006012 galactose metabolic process http://purl.obolibrary.org/obo/CHEBI_28260 galactose
http://purl.obolibrary.org/obo/GO_0006681 galactosylceramide metabolic process http://purl.obolibrary.org/obo/CHEBI_36498 galactosylceramide
http://purl.obolibrary.org/obo/GO_0010393 galacturonan metabolic process http://purl.obolibrary.org/obo/CHEBI_24174 galacturonan
Expand Down Expand Up @@ -672,6 +672,7 @@ http://purl.obolibrary.org/obo/GO_0046160 heme a metabolic process http://purl.o
http://purl.obolibrary.org/obo/GO_0042168 heme metabolic process http://purl.obolibrary.org/obo/CHEBI_30413 heme
http://purl.obolibrary.org/obo/GO_0010410 hemicellulose metabolic process http://purl.obolibrary.org/obo/CHEBI_61266 hemicellulose
http://purl.obolibrary.org/obo/GO_0020027 hemoglobin metabolic process http://purl.obolibrary.org/obo/CHEBI_35143 hemoglobin
http://purl.obolibrary.org/obo/GO_0030201 heparan sulfate proteoglycan metabolic process http://purl.obolibrary.org/obo/CHEBI_24499 heparan sulfate proteoglycan
http://purl.obolibrary.org/obo/GO_0030202 heparin metabolic process http://purl.obolibrary.org/obo/CHEBI_24505 heparins
http://purl.obolibrary.org/obo/GO_0051121 hepoxilin metabolic process http://purl.obolibrary.org/obo/CHEBI_62938 hepoxilin anion
http://purl.obolibrary.org/obo/GO_1900874 heptadec-1-ene metabolic process http://purl.obolibrary.org/obo/CHEBI_64502 1-heptadecene
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3 changes: 1 addition & 2 deletions src/design_patterns/negative_regulation.tsv
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Expand Up @@ -71,7 +71,6 @@ http://purl.obolibrary.org/obo/GO_2000279 negative regulation of DNA biosyntheti
http://purl.obolibrary.org/obo/GO_1903625 negative regulation of DNA catabolic process http://purl.obolibrary.org/obo/GO_0006308 DNA catabolic process
http://purl.obolibrary.org/obo/GO_2000002 negative regulation of DNA damage checkpoint http://purl.obolibrary.org/obo/GO_0000077 DNA damage checkpoint signaling
http://purl.obolibrary.org/obo/GO_0043518 negative regulation of DNA damage response, signal transduction by p53 class mediator http://purl.obolibrary.org/obo/GO_0030330 DNA damage response, signal transduction by p53 class mediator
http://purl.obolibrary.org/obo/GO_1902163 negative regulation of DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator http://purl.obolibrary.org/obo/GO_0006978 DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator
http://purl.obolibrary.org/obo/GO_1905463 negative regulation of DNA duplex unwinding http://purl.obolibrary.org/obo/GO_0032508 DNA duplex unwinding
http://purl.obolibrary.org/obo/GO_0032876 negative regulation of DNA endoreduplication http://purl.obolibrary.org/obo/GO_0042023 DNA endoreduplication
http://purl.obolibrary.org/obo/GO_0051107 negative regulation of DNA ligation http://purl.obolibrary.org/obo/GO_0006266 DNA ligation
Expand Down Expand Up @@ -2357,7 +2356,6 @@ http://purl.obolibrary.org/obo/GO_1904657 negative regulation of sensory percept
http://purl.obolibrary.org/obo/GO_0031030 negative regulation of septation initiation signaling http://purl.obolibrary.org/obo/GO_0031028 septation initiation signaling
http://purl.obolibrary.org/obo/GO_2001042 negative regulation of septum digestion after cytokinesis http://purl.obolibrary.org/obo/GO_0000920 septum digestion after cytokinesis
http://purl.obolibrary.org/obo/GO_0051283 negative regulation of sequestering of calcium ion http://purl.obolibrary.org/obo/GO_0051208 sequestering of calcium ion
http://purl.obolibrary.org/obo/GO_0010891 negative regulation of sequestering of triglyceride http://purl.obolibrary.org/obo/GO_0030730 sequestering of triglyceride
http://purl.obolibrary.org/obo/GO_1904221 negative regulation of serine C-palmitoyltransferase activity http://purl.obolibrary.org/obo/GO_0004758 serine C-palmitoyltransferase activity
http://purl.obolibrary.org/obo/GO_1900004 negative regulation of serine-type endopeptidase activity http://purl.obolibrary.org/obo/GO_0004252 serine-type endopeptidase activity
http://purl.obolibrary.org/obo/GO_1902572 negative regulation of serine-type peptidase activity http://purl.obolibrary.org/obo/GO_0008236 serine-type peptidase activity
Expand Down Expand Up @@ -2650,6 +2648,7 @@ http://purl.obolibrary.org/obo/GO_1900894 negative regulation of tridecane metab
http://purl.obolibrary.org/obo/GO_0010868 negative regulation of triglyceride biosynthetic process http://purl.obolibrary.org/obo/GO_0019432 triglyceride biosynthetic process
http://purl.obolibrary.org/obo/GO_0010897 negative regulation of triglyceride catabolic process http://purl.obolibrary.org/obo/GO_0019433 triglyceride catabolic process
http://purl.obolibrary.org/obo/GO_0090209 negative regulation of triglyceride metabolic process http://purl.obolibrary.org/obo/GO_0006641 triglyceride metabolic process
http://purl.obolibrary.org/obo/GO_0010891 negative regulation of triglyceride storage http://purl.obolibrary.org/obo/GO_0030730 triglyceride storage
http://purl.obolibrary.org/obo/GO_1905884 negative regulation of triglyceride transport http://purl.obolibrary.org/obo/GO_0034197 triglyceride transport
http://purl.obolibrary.org/obo/GO_1905497 negative regulation of triplex DNA binding http://purl.obolibrary.org/obo/GO_0045142 triplex DNA binding
http://purl.obolibrary.org/obo/GO_1904074 negative regulation of trophectodermal cell proliferation http://purl.obolibrary.org/obo/GO_0001834 trophectodermal cell proliferation
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2 changes: 0 additions & 2 deletions src/design_patterns/occursIn.tsv
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Expand Up @@ -86,7 +86,6 @@ http://purl.obolibrary.org/obo/GO_0045200 establishment of neuroblast polarity h
http://purl.obolibrary.org/obo/GO_0006860 extracellular amino acid transport http://purl.obolibrary.org/obo/GO_0005576 extracellular region http://purl.obolibrary.org/obo/GO_0006865 amino acid transport
http://purl.obolibrary.org/obo/GO_1900116 extracellular negative regulation of signal transduction http://purl.obolibrary.org/obo/GO_0005576 extracellular region http://purl.obolibrary.org/obo/GO_0009968 negative regulation of signal transduction
http://purl.obolibrary.org/obo/GO_1900115 extracellular regulation of signal transduction http://purl.obolibrary.org/obo/GO_0005576 extracellular region http://purl.obolibrary.org/obo/GO_0009966 regulation of signal transduction
http://purl.obolibrary.org/obo/GO_0097579 extracellular sequestering of copper ion http://purl.obolibrary.org/obo/GO_0005576 extracellular region http://purl.obolibrary.org/obo/GO_0097578 sequestering of copper ion
http://purl.obolibrary.org/obo/GO_0006858 extracellular transport http://purl.obolibrary.org/obo/GO_0005576 extracellular region http://purl.obolibrary.org/obo/GO_0006810 transport
http://purl.obolibrary.org/obo/GO_1904606 fat cell apoptotic process http://purl.obolibrary.org/obo/CL_0000136 adipocyte http://purl.obolibrary.org/obo/GO_0006915 apoptotic process
http://purl.obolibrary.org/obo/GO_0044346 fibroblast apoptotic process http://purl.obolibrary.org/obo/CL_0000057 fibroblast http://purl.obolibrary.org/obo/GO_0006915 apoptotic process
Expand All @@ -112,7 +111,6 @@ http://purl.obolibrary.org/obo/GO_0002227 innate immune response in mucosa http:
http://purl.obolibrary.org/obo/GO_0044258 intestinal lipid catabolic process http://purl.obolibrary.org/obo/UBERON_0000160 intestine http://purl.obolibrary.org/obo/GO_0016042 lipid catabolic process
http://purl.obolibrary.org/obo/GO_0032367 intracellular cholesterol transport http://purl.obolibrary.org/obo/GO_0005622 intracellular anatomical structure http://purl.obolibrary.org/obo/GO_0030301 cholesterol transport
http://purl.obolibrary.org/obo/GO_0015859 intracellular nucleoside transport http://purl.obolibrary.org/obo/GO_0005622 intracellular anatomical structure http://purl.obolibrary.org/obo/GO_0015858 nucleoside transport
http://purl.obolibrary.org/obo/GO_0097580 intracellular sequestering of copper ion http://purl.obolibrary.org/obo/GO_0005622 intracellular anatomical structure http://purl.obolibrary.org/obo/GO_0097578 sequestering of copper ion
http://purl.obolibrary.org/obo/GO_0035556 intracellular signal transduction http://purl.obolibrary.org/obo/GO_0005622 intracellular anatomical structure http://purl.obolibrary.org/obo/GO_0007165 signal transduction
http://purl.obolibrary.org/obo/GO_0032366 intracellular sterol transport http://purl.obolibrary.org/obo/GO_0005622 intracellular anatomical structure http://purl.obolibrary.org/obo/GO_0015918 sterol transport
http://purl.obolibrary.org/obo/GO_0046907 intracellular transport http://purl.obolibrary.org/obo/GO_0005622 intracellular anatomical structure http://purl.obolibrary.org/obo/GO_0006810 transport
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3 changes: 1 addition & 2 deletions src/design_patterns/positive_regulation.tsv
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Expand Up @@ -73,7 +73,6 @@ http://purl.obolibrary.org/obo/GO_2000573 positive regulation of DNA biosyntheti
http://purl.obolibrary.org/obo/GO_1903626 positive regulation of DNA catabolic process http://purl.obolibrary.org/obo/GO_0006308 DNA catabolic process
http://purl.obolibrary.org/obo/GO_2000003 positive regulation of DNA damage checkpoint http://purl.obolibrary.org/obo/GO_0000077 DNA damage checkpoint signaling
http://purl.obolibrary.org/obo/GO_0043517 positive regulation of DNA damage response, signal transduction by p53 class mediator http://purl.obolibrary.org/obo/GO_0030330 DNA damage response, signal transduction by p53 class mediator
http://purl.obolibrary.org/obo/GO_1902164 positive regulation of DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator http://purl.obolibrary.org/obo/GO_0006978 DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator
http://purl.obolibrary.org/obo/GO_1905464 positive regulation of DNA duplex unwinding http://purl.obolibrary.org/obo/GO_0032508 DNA duplex unwinding
http://purl.obolibrary.org/obo/GO_0032877 positive regulation of DNA endoreduplication http://purl.obolibrary.org/obo/GO_0042023 DNA endoreduplication
http://purl.obolibrary.org/obo/GO_1905776 positive regulation of DNA helicase activity http://purl.obolibrary.org/obo/GO_0003678 DNA helicase activity
Expand Down Expand Up @@ -2362,7 +2361,6 @@ http://purl.obolibrary.org/obo/GO_1904658 positive regulation of sensory percept
http://purl.obolibrary.org/obo/GO_0031031 positive regulation of septation initiation signaling http://purl.obolibrary.org/obo/GO_0031028 septation initiation signaling
http://purl.obolibrary.org/obo/GO_2001043 positive regulation of septum digestion after cytokinesis http://purl.obolibrary.org/obo/GO_0000920 septum digestion after cytokinesis
http://purl.obolibrary.org/obo/GO_0051284 positive regulation of sequestering of calcium ion http://purl.obolibrary.org/obo/GO_0051208 sequestering of calcium ion
http://purl.obolibrary.org/obo/GO_0010890 positive regulation of sequestering of triglyceride http://purl.obolibrary.org/obo/GO_0030730 sequestering of triglyceride
http://purl.obolibrary.org/obo/GO_1904222 positive regulation of serine C-palmitoyltransferase activity http://purl.obolibrary.org/obo/GO_0004758 serine C-palmitoyltransferase activity
http://purl.obolibrary.org/obo/GO_1900005 positive regulation of serine-type endopeptidase activity http://purl.obolibrary.org/obo/GO_0004252 serine-type endopeptidase activity
http://purl.obolibrary.org/obo/GO_1902573 positive regulation of serine-type peptidase activity http://purl.obolibrary.org/obo/GO_0008236 serine-type peptidase activity
Expand Down Expand Up @@ -2657,6 +2655,7 @@ http://purl.obolibrary.org/obo/GO_1900895 positive regulation of tridecane metab
http://purl.obolibrary.org/obo/GO_0010867 positive regulation of triglyceride biosynthetic process http://purl.obolibrary.org/obo/GO_0019432 triglyceride biosynthetic process
http://purl.obolibrary.org/obo/GO_0010898 positive regulation of triglyceride catabolic process http://purl.obolibrary.org/obo/GO_0019433 triglyceride catabolic process
http://purl.obolibrary.org/obo/GO_0090208 positive regulation of triglyceride metabolic process http://purl.obolibrary.org/obo/GO_0006641 triglyceride metabolic process
http://purl.obolibrary.org/obo/GO_0010890 positive regulation of triglyceride storage http://purl.obolibrary.org/obo/GO_0030730 triglyceride storage
http://purl.obolibrary.org/obo/GO_1905885 positive regulation of triglyceride transport http://purl.obolibrary.org/obo/GO_0034197 triglyceride transport
http://purl.obolibrary.org/obo/GO_1905498 positive regulation of triplex DNA binding http://purl.obolibrary.org/obo/GO_0045142 triplex DNA binding
http://purl.obolibrary.org/obo/GO_1904075 positive regulation of trophectodermal cell proliferation http://purl.obolibrary.org/obo/GO_0001834 trophectodermal cell proliferation
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