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Merge pull request #244 from FlyBase/new-tools
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New experimental tool descriptors
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@gouttegd
gouttegd authored Jun 24, 2024
2 parents e45e45a + c2185fa commit 50d12cf
Showing 1 changed file with 160 additions and 7 deletions.
167 changes: 160 additions & 7 deletions src/ontology/fbcv-edit.obo
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Expand Up @@ -7919,7 +7919,7 @@ property_value: http://purl.org/dc/terms/date "2017-06-28T11:41:27Z" xsd:dateTim
id: FBcv:0005051
name: split system component
namespace: experimental_tool_descriptor
def: "Component that forms part of a 'split system'. A split system component corresponds to a non-functional fragment of a functional experimental tool that would normally be encoded by a single gene product. When combined with another appropriate split system component in vivo, a functional experimental tool is produced. The fragments of a split system can be brought together in vivo in a number of different ways; for example, by fusing fragments to peptides that physically interact in vivo." [FBC:GM]
def: "Component that forms part of a 'split system'. A split system component corresponds to a non-functional fragment of a functional experimental tool. When combined with another appropriate split system component in vivo, a functional experimental tool is produced. The fragments of a split system can be brought together in vivo in a number of different ways; for example, by fusing fragments to peptides that physically interact in vivo." [FBC:GM]
is_a: FBcv:0005001 ! experimental tool descriptor
property_value: http://purl.org/dc/terms/contributor http://orcid.org/0000-0002-0027-0858
property_value: http://purl.org/dc/terms/date "2017-06-28T11:41:27Z" xsd:dateTime
Expand All @@ -7929,7 +7929,7 @@ id: FBcv:0005052
name: split fluorescent protein
namespace: experimental_tool_descriptor
def: "Non-fluorescent fragment of a fluorescent protein. A functional fluorophore can be reconstituted if a split fluorescent protein fragment is expressed with a complementary split fluorescent protein fragment and the fragments are brought together in vivo, permitting the study of biological interactions. Protein-protein interactions can be studied using the bimolecular fluorescence complementation (BiFC) technique, where a fluorescent protein is reconstituted if the two complementary split fluorescent protein fragments are fused to interacting proteins or protein domains that bring the split halves together into the same macromolecular complex. Associations between closely apposed cells can be studied if the two complementary split fluorescent protein fragments are tethered to the surface of these cells, for example to study connectivity in the nervous system using the GFP Reconstitution Across Synaptic Partners (GRASP) technique." [FBC:GM, PMID:11983170, PMID:18255029]
is_a: FBcv:0005051 ! split system component
is_a: FBcv:0009048 ! split protein detection tool
property_value: http://purl.org/dc/terms/contributor http://orcid.org/0000-0002-0027-0858
property_value: http://purl.org/dc/terms/date "2017-06-28T11:41:27Z" xsd:dateTime

Expand All @@ -7938,7 +7938,7 @@ id: FBcv:0005053
name: split reporter enzyme
namespace: experimental_tool_descriptor
def: "Sequence that forms all or part of the protein product encoded by a transgenic locus or modified endogenous locus and that encodes a catalytically inactive fragment of an enzyme whose activity can be used to detect the presence of that protein product when complementary split reporter enzyme fragments are brought together in vivo. Fragments may be brought together when fused to peptides that physically interact, permitting the study of protein-protein interactions." [FBC:GM, http://orcid.org/0000-0002-1373-1705, PMID:9237989]
is_a: FBcv:0005051 ! split system component
is_a: FBcv:0009048 ! split protein detection tool
property_value: http://purl.org/dc/terms/contributor http://orcid.org/0000-0002-0027-0858
property_value: http://purl.org/dc/terms/date "2017-06-28T11:41:27Z" xsd:dateTime

Expand Down Expand Up @@ -8362,7 +8362,7 @@ name: cell ablation tool
namespace: experimental_tool_descriptor
def: "Sequence that forms all or part of the gene product encoded by a transgenic locus or modified endogenous locus and that confers a specific property used to ablate a specific cell or anatomical structure." [FBC:GM]
subset: common_tool_use
is_a: FBcv:0005001 ! experimental tool descriptor
is_a: FBcv:0009043 ! cell viability regulation tool
property_value: http://purl.org/dc/terms/contributor http://orcid.org/0000-0002-1373-1705
property_value: http://purl.org/dc/terms/date "2019-06-25T10:53:21Z" xsd:dateTime

Expand Down Expand Up @@ -8501,7 +8501,7 @@ id: FBcv:0007028
name: split recombinase
namespace: experimental_tool_descriptor
def: "Catalytically inactive fragment of a recombinase. A functional recombinase can be reconstituted when complementary split recombinase fragments are brought together in vivo, for example by fusing the fragments to peptides that physically interact." [FBC:GM]
is_a: FBcv:0005051 ! split system component
is_a: FBcv:0009045 ! split genome engineering tool
property_value: http://purl.org/dc/terms/contributor http://orcid.org/0000-0002-1373-1705
property_value: http://purl.org/dc/terms/date "2019-06-26T07:55:34Z" xsd:dateTime

Expand Down Expand Up @@ -9195,7 +9195,7 @@ id: FBcv:0009031
name: split protease
namespace: experimental_tool_descriptor
def: "Catalytically inactive fragment of a protease. A functional protease can be reconstituted when complementary split protease fragments are brought together in vivo, for example by fusing the fragments to peptides that physically interact." [FBC:GM]
is_a: FBcv:0005051 ! split system component
is_a: FBcv:0009046 ! split gene product engineering tool
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-05-03T13:12:34Z" xsd:dateTime

Expand Down Expand Up @@ -9231,7 +9231,7 @@ id: FBcv:0009035
name: split cell ablation tool
namespace: experimental_tool_descriptor
def: "Non-functional fragment of a cell ablation tool. A functional cell ablation tool can be reconstituted when complementary split cell ablation tool fragments are brought together in vivo, for example by fusing the fragments to peptides that physically interact." [FBC:GM]
is_a: FBcv:0005051 ! split system component
is_a: FBcv:0009049 ! split cell viability regulation tool
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-05-29T10:09:01Z" xsd:dateTime

Expand All @@ -9253,6 +9253,159 @@ is_a: FBcv:0009036 ! conditional protease target site
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-05-29T10:13:50Z" xsd:dateTime

[Term]
id: FBcv:0009038
name: conditional RNA-guided nuclease
namespace: experimental_tool_descriptor
def: "An enzyme that catalyzes hydrolysis of DNA in a site-specific manner, where the specificity is determined by a guide RNA that contains sequence complementary to the DNA sequence of interest (rather than being an inherent property of the nuclease itself) and where the nuclease activity can be regulated in response to a particular stimulus." [FBC:GM]
is_a: FBcv:0005078 ! RNA-guided nuclease
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T10:42:33Z" xsd:dateTime

[Term]
id: FBcv:0009039
name: small molecule-regulated RNA-guided nuclease
namespace: experimental_tool_descriptor
def: "An enzyme that catalyzes hydrolysis of DNA in a site-specific manner, where the specificity is determined by a guide RNA that contains sequence complementary to the DNA sequence of interest (rather than being an inherent property of the nuclease itself) and where the nuclease activity can be regulated by binding to a small molecule, such as an ion or ligand." [FBC:GM]
is_a: FBcv:0009038 ! conditional RNA-guided nuclease
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T10:44:12Z" xsd:dateTime

[Term]
id: FBcv:0009040
name: protein splicing tag
namespace: experimental_tool_descriptor
def: "Sequence that forms part of the protein product encoded by a transgenic locus or modified endogenous locus and which results in the tagged gene product undergoing protein splicing." [FBC:GM]
is_a: FBcv:0009022 ! gene product engineering tool
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T10:47:32Z" xsd:dateTime

[Term]
id: FBcv:0009041
name: conditional protein splicing tag
namespace: experimental_tool_descriptor
def: "Sequence that forms part of the protein product encoded by a transgenic locus or modified endogenous locus and which results in the tagged gene product undergoing protein splicing, where this process can be regulated in response to a particular stimulus." [FBC:GM]
is_a: FBcv:0009040 ! protein splicing tag
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T10:48:27Z" xsd:dateTime

[Term]
id: FBcv:0009042
name: small molecule-regulated protein splicing tag
namespace: experimental_tool_descriptor
def: "Sequence that forms part of the protein product encoded by a transgenic locus or modified endogenous locus and which results in the tagged gene product undergoing protein splicing, where this process can be regulated by binding to a small molecule, such as an ion or ligand." [FBC:GM]
is_a: FBcv:0009041 ! conditional protein splicing tag
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T10:49:38Z" xsd:dateTime

[Term]
id: FBcv:0009043
name: cell viability regulation tool
namespace: experimental_tool_descriptor
def: "Sequence that forms all or part of the gene product encoded by a transgenic locus or modified endogenous locus and that confers a specific property used to regulate the viability of a specific cell or anatomical structure." [FBC:GM]
is_a: FBcv:0005001 ! experimental tool descriptor
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:04:56Z" xsd:dateTime

[Term]
id: FBcv:0009044
name: cell death inhibition tool
namespace: experimental_tool_descriptor
def: "Sequence that forms all or part of the gene product encoded by a transgenic locus or modified endogenous locus and that confers a specific property used to inhibit cell death in a specific cell or anatomical structure." [FBC:GM]
is_a: FBcv:0009043 ! cell viability regulation tool
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:06:20Z" xsd:dateTime

[Term]
id: FBcv:0009045
name: split genome engineering tool
namespace: experimental_tool_descriptor
def: "Non-functional fragment of a genome engineering tool. A functional genome engineering tool can be reconstituted when complementary split genome engineering tool fragments are brought together in vivo, for example by fusing the fragments to peptides that physically interact." [FBC:GM]
is_a: FBcv:0005051 ! split system component
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:11:57Z" xsd:dateTime

[Term]
id: FBcv:0009046
name: split gene product engineering tool
namespace: experimental_tool_descriptor
def: "Non-functional fragment of a gene product engineering tool. A functional gene product engineering tool can be reconstituted when complementary split gene product engineering tool fragments are brought together in vivo, for example by fusing the fragments to peptides that physically interact." [FBC:GM]
is_a: FBcv:0005051 ! split system component
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:13:39Z" xsd:dateTime

[Term]
id: FBcv:0009047
name: split gene product detection tool
namespace: experimental_tool_descriptor
def: "Non-functional fragment of a gene product detection tool. A functional gene product detection tool can be reconstituted when complementary split gene product detection tool fragments are brought together in vivo, for example by fusing the fragments to peptides that physically interact." [FBC:GM]
is_a: FBcv:0005051 ! split system component
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:14:32Z" xsd:dateTime

[Term]
id: FBcv:0009048
name: split protein detection tool
namespace: experimental_tool_descriptor
def: "Non-functional fragment of a protein detection tool. A functional protein detection tool can be reconstituted when complementary split protein detection tool fragments are brought together in vivo, for example by fusing the fragments to peptides that physically interact." [FBC:GM]
is_a: FBcv:0009047 ! split gene product detection tool
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:15:29Z" xsd:dateTime

[Term]
id: FBcv:0009049
name: split cell viability regulation tool
namespace: experimental_tool_descriptor
def: "Non-functional fragment of a cell viability regulation tool. A functional cell viability regulation tool can be reconstituted when complementary split cell viability regulation tool fragments are brought together in vivo, for example by fusing the fragments to peptides that physically interact." [FBC:GM]
is_a: FBcv:0005051 ! split system component
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:16:29Z" xsd:dateTime

[Term]
id: FBcv:0009050
name: split nuclease
namespace: experimental_tool_descriptor
def: "Non-functional fragment of a nuclease. A functional nuclease can be reconstituted when complementary split nuclease fragments are brought together in vivo, for example by fusing the fragments to peptides that physically interact." [FBC:GM]
is_a: FBcv:0009045 ! split genome engineering tool
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:30:43Z" xsd:dateTime

[Term]
id: FBcv:0009051
name: split RNA-guided nuclease
namespace: experimental_tool_descriptor
def: "Non-functional fragment of an RNA-guided nuclease. A functional RNA-guided nuclease can be reconstituted when complementary split RNA-guided nuclease fragments are brought together in vivo, for example by fusing the fragments to peptides that physically interact." [FBC:GM]
is_a: FBcv:0009050 ! split nuclease
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:31:36Z" xsd:dateTime

[Term]
id: FBcv:0009052
name: conditional split RNA-guided nuclease
namespace: experimental_tool_descriptor
def: "Non-functional fragment of an RNA-guided nuclease that can be used to reconstitute a functional RNA-guided nuclease when brought together in vivo with a complementary split RNA-guided nuclease fragment, where the process that brings the complementary fragments together can be regulated in response to a particular stimulus." [FBC:GM]
is_a: FBcv:0009051 ! split RNA-guided nuclease
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:33:51Z" xsd:dateTime

[Term]
id: FBcv:0009053
name: small molecule-regulated split RNA-guided nuclease
namespace: experimental_tool_descriptor
def: "Non-functional fragment of an RNA-guided nuclease that can be used to reconstitute a functional RNA-guided nuclease when brought together in vivo with a complementary split RNA-guided nuclease fragment, where the process that brings the complementary fragments together can be regulated by binding to a small molecule, such as an ion or ligand." [FBC:GM]
is_a: FBcv:0009052 ! conditional split RNA-guided nuclease
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:35:10Z" xsd:dateTime

[Term]
id: FBcv:0009054
name: split protein splicing tag
namespace: experimental_tool_descriptor
def: "Sequence that forms part of the protein product encoded by a transgenic locus or modified endogenous locus and that can catalyze protein splicing when brought together with a complementary split protein splicing tag in vivo. Typically used to join two separate protein sequences by trans-splicing; in this case the two separate protein sequences are each initially tagged with one half of a pair of complementary split protein splicing tags. Alternatively, if both halves of a pair of complementary split protein splicing tags are used to tag each end of a single protein sequence, they can be used to generate a cyclized protein molecule." [FBC:GM]
is_a: FBcv:0009046 ! split gene product engineering tool
property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6095-8718
property_value: http://purl.org/dc/terms/date "2024-06-24T11:44:00Z" xsd:dateTime

[Term]
id: FBcv:0010000
name: obsolete living stock
Expand Down

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