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ENCLAB-426-add-objects-for-Feb-21-2024-submission #49

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ENCLAB-426-add-objects-for-Feb-21-2024-submission #49

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b72b56e
add objects for Feb-21-2024 submission
Feb 22, 2024
72bd85b
update two missing
Mar 5, 2024
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46 changes: 46 additions & 0 deletions biosamples/ENCBS000CGI_modified.json
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{
"accession": "ENCBS000CGI",
"age": "3.5",
"age_units": "hour",
"applied_modifications": [
{
"category": "insertion",
"introduced_tags": [
{
"location": "C-terminal",
"name": "eGFP"
}
],
"modified_site_by_target_id": "hlh-13",
"purpose": "tagging",
"reagents": [
{
"URL": "https://www.sourcebioscience.com/search?search=WRM064dD01",
"identifier": "source-bioscience:WRM064dD01",
"source": "/sources/source-bioscience/"
}
]
}
],
"biosample_term_id": "UBERON:0000468",
"biosample_term_name": "whole organism",
"biosample_type": "whole organisms",
"characterizations": [
{
"references": []
}
],
"dbxrefs": [],
"description": "Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to HLH-13.",
"documents": [],
"donor": "ENCDO670UNA",
"lab": "Valerie Reinke, Yale",
"life_stage": "late embryonic",
"organism": "Caenorhabditis elegans",
"references": [],
"sex": "mixed",
"source": "Valerie Reinke",
"summary": "Caenorhabditis elegans strain OP744 (wgIs744 [hlh-13::TY1::EGFP::3xFLAG + unc-119(+)];unc-119 (tm4063)) mixed sex late embryo (3.5 hours) using egg bleaching whole organism genetically modified (insertion) using bombardment targeting C. elegans hlh-13",
"treatments": [],
"worm_synchronization_stage": "egg bleaching"
}
43 changes: 43 additions & 0 deletions biosamples/ENCBS000EJW_modified.json
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{
"accession": "ENCBS000EJW",
"age": "0-14",
"age_units": "hour",
"applied_modifications": [
{
"category": "insertion",
"introduced_tags": [
{
"location": "C-terminal",
"name": "eGFP"
}
],
"method": "site-specific recombination",
"modified_site_by_target_id": "CG6254",
"purpose": "tagging",
"treatments": [
{
"dbxrefs": [],
"treatment_term_id": "UniProtKB:Q9T221",
"treatment_term_name": "Integrase",
"treatment_type": "protein"
}
]
}
],
"biosample_term_id": "UBERON:0000468",
"biosample_term_name": "whole organism",
"biosample_type": "whole organisms",
"characterizations": [],
"dbxrefs": [],
"description": "Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG6254",
"documents": [],
"donor": "ENCDO735VFB",
"lab": "Kevin White, UChicago",
"life_stage": "embryonic",
"organism": "Drosophila melanogaster",
"references": [],
"sex": "mixed",
"source": "Kevin White",
"summary": "Drosophila melanogaster strain CG6254-GFP mixed sex embryo (0-14 hours) whole organism genetically modified (insertion) using site-specific recombination targeting D. melanogaster CG6254",
"treatments": []
}
44 changes: 44 additions & 0 deletions biosamples/ENCBS000HQU_modified.json
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{
"accession": "ENCBS000HQU",
"age": "unknown",
"applied_modifications": [
{
"category": "insertion",
"introduced_tags": [
{
"location": "C-terminal",
"name": "eGFP"
},
{
"location": "C-terminal",
"name": "3xFLAG"
}
],
"modified_site_by_target_id": "elt-3",
"purpose": "tagging",
"reagents": [
{
"identifier": "source-bioscience:WRM0613aE03",
"source": "/sources/source-bioscience/",
"url": "https://www.sourcebioscience.com/search?search=WRM0613aE03"
}
]
}
],
"biosample_term_id": "UBERON:0000468",
"biosample_term_name": "whole organism",
"biosample_type": "whole organisms",
"characterizations": [],
"dbxrefs": [],
"description": "Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to ELT-3",
"documents": [],
"donor": "ENCDO887AXX",
"lab": "Michael Snyder, Stanford",
"life_stage": "L1 larva",
"organism": "Caenorhabditis elegans",
"references": [],
"sex": "mixed",
"source": "Michael Snyder",
"summary": "Caenorhabditis elegans strain OP75 (unc-119(ed3) III; wgIs75) mixed sex L1 larva whole organism genetically modified (insertion) using bombardment targeting C. elegans elt-3",
"treatments": []
}
49 changes: 49 additions & 0 deletions biosamples/ENCBS000UXH_modified.json
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{
"accession": "ENCBS000UXH",
"age": "unknown",
"applied_modifications": [
{
"category": "insertion",
"introduced_tags": [
{
"location": "C-terminal",
"name": "eGFP"
}
],
"method": "site-specific recombination",
"modified_site_by_target_id": "Clk",
"purpose": "tagging",
"reagents": [
{
"identifier": "bacpac:CH322-164C21",
"source": "/sources/bacpac/",
"url": "https://bacpacresources.org/cloneInfoSearch.php"
}
],
"treatments": [
{
"dbxrefs": [],
"treatment_term_id": "UniProtKB:Q9T221",
"treatment_term_name": "Integrase",
"treatment_type": "protein"
}
]
}
],
"biosample_term_id": "UBERON:0000468",
"biosample_term_name": "whole organism",
"biosample_type": "whole organisms",
"characterizations": [],
"dbxrefs": [],
"description": "Transgenic D. mel line, stably expressing a C-terminal GFP fused to Clk",
"documents": [],
"donor": "ENCDO515ZZU",
"lab": "Kevin White, UChicago",
"life_stage": "adult",
"organism": "Drosophila melanogaster",
"references": [],
"sex": "male",
"source": "Kevin White",
"summary": "Drosophila melanogaster strain Clk-GFP male adult whole organism genetically modified (insertion) using site-specific recombination targeting D. melanogaster Clk",
"treatments": []
}
43 changes: 43 additions & 0 deletions biosamples/ENCBS001CIL_modified.json
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{
"accession": "ENCBS001CIL",
"age": "0-18",
"age_units": "hour",
"applied_modifications": [
{
"category": "insertion",
"introduced_tags": [
{
"location": "C-terminal",
"name": "eGFP"
}
],
"method": "site-specific recombination",
"modified_site_by_target_id": "CkII\u03b1-i1",
"purpose": "tagging",
"treatments": [
{
"dbxrefs": [],
"treatment_term_id": "UniProtKB:Q9T221",
"treatment_term_name": "Integrase",
"treatment_type": "protein"
}
]
}
],
"biosample_term_id": "UBERON:0000468",
"biosample_term_name": "whole organism",
"biosample_type": "whole organisms",
"characterizations": [],
"dbxrefs": [],
"description": "",
"documents": [],
"donor": "ENCDO209IOV",
"lab": "Kevin White, UChicago",
"life_stage": "embryonic",
"organism": "Drosophila melanogaster",
"references": [],
"sex": "unknown",
"source": "Kevin White",
"summary": "Drosophila melanogaster strain CkII\u03b1-i1-GFP embryo (0-18 hours) whole organism genetically modified (insertion) using site-specific recombination targeting D. melanogaster CkIIalpha-i1",
"treatments": []
}
39 changes: 39 additions & 0 deletions biosamples/ENCBS001DOR_modified.json
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{
"accession": "ENCBS001DOR",
"age": "unknown",
"applied_modifications": [
{
"category": "insertion",
"introduced_tags": [
{
"location": "C-terminal",
"name": "eGFP",
"promoter_used": "/targets/dpl-1-celegans/"
},
{
"location": "C-terminal",
"name": "FLAG",
"promoter_used": "/targets/dpl-1-celegans/"
}
],
"modified_site_by_target_id": "dpl-1",
"purpose": "tagging"
}
],
"biosample_term_id": "UBERON:0000468",
"biosample_term_name": "whole organism",
"biosample_type": "whole organisms",
"characterizations": [],
"dbxrefs": [],
"description": "",
"documents": [],
"donor": "ENCDO844IEZ",
"lab": "Michael Snyder, Stanford",
"life_stage": "L1 larva",
"organism": "Caenorhabditis elegans",
"references": [],
"sex": "mixed",
"source": "CGC",
"summary": "Caenorhabditis elegans strain YL425 (unc-119(ed3)III; vrIs69[pDPL-1::DPL-1::GFP FLAG: DPL-1 3\u2019UTR, unc-119 (+)]) mixed sex L1 larva whole organism genetically modified (insertion) using bombardment targeting C. elegans dpl-1",
"treatments": []
}
43 changes: 43 additions & 0 deletions biosamples/ENCBS001FHM_modified.json
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{
"accession": "ENCBS001FHM",
"age": "0-8",
"age_units": "hour",
"applied_modifications": [
{
"category": "insertion",
"introduced_tags": [
{
"location": "C-terminal",
"name": "eGFP"
}
],
"method": "site-specific recombination",
"modified_site_by_target_id": "CG16813",
"purpose": "tagging",
"treatments": [
{
"dbxrefs": [],
"treatment_term_id": "UniProtKB:Q9T221",
"treatment_term_name": "Integrase",
"treatment_type": "protein"
}
]
}
],
"biosample_term_id": "UBERON:0000468",
"biosample_term_name": "whole organism",
"biosample_type": "whole organisms",
"characterizations": [],
"dbxrefs": [],
"description": "",
"documents": [],
"donor": "ENCDO447ODQ",
"lab": "Kevin White, UChicago",
"life_stage": "embryonic",
"organism": "Drosophila melanogaster",
"references": [],
"sex": "unknown",
"source": "Kevin White",
"summary": "Drosophila melanogaster strain CG16813-GFP embryo (0-8 hours) whole organism genetically modified (insertion) using site-specific recombination targeting D. melanogaster CG16813",
"treatments": []
}
41 changes: 41 additions & 0 deletions biosamples/ENCBS001KRB_modified.json
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{
"accession": "ENCBS001KRB",
"age": "unknown",
"applied_modifications": [
{
"category": "insertion",
"introduced_tags": [
{
"location": "C-terminal",
"name": "eGFP",
"promoter_used": "/targets/sma-9-celegans/"
}
],
"modified_site_by_target_id": "sma-9",
"purpose": "tagging"
}
],
"biosample_term_id": "UBERON:0000468",
"biosample_term_name": "whole organism",
"biosample_type": "whole organisms",
"characterizations": [
{
"references": []
}
],
"dbxrefs": [],
"description": "Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to SMA-9",
"documents": [],
"donor": "ENCDO730ORW",
"lab": "Valerie Reinke, Yale",
"life_stage": "L2 larva",
"organism": "Caenorhabditis elegans",
"post_synchronization_time": 22.0,
"post_synchronization_time_units": "hour",
"references": [],
"sex": "hermaphrodite",
"source": "Valerie Reinke",
"summary": "Caenorhabditis elegans strain LW1254 (jjIs1254[Im486.2: pJKL723.2(sma-9C2::gfp+unc-119(+) ]; unc-119(ed4)) hermaphrodite L2 larva 22 hours post synchronization at L1 larva starved after bleaching stage whole organism genetically modified (insertion) using bombardment targeting C. elegans sma-9",
"treatments": [],
"worm_synchronization_stage": "L1 larva starved after bleaching"
}
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