{
"@context": "/terms/",
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"@type": [
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"FileSet",
"Item"
],
"accession": "IGVFDS0373CFJS",
"aliases": [
"gary-hon:differentited_WTC11_CM_Pilot2_Mini_PB9_sgRNA_LW438"
],
"audit": {
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{
"category": "missing sequence specification",
"detail": "Auxiliary set [IGVFDS0373CFJS](/auxiliary-sets/IGVFDS0373CFJS/) has sequence file(s): [IGVFFI3053AQRM](/sequence-files/IGVFFI3053AQRM/), [IGVFFI7807KQXP](/sequence-files/IGVFFI7807KQXP/), [IGVFFI7701ZMBO](/sequence-files/IGVFFI7701ZMBO/), [IGVFFI1618BPQM](/sequence-files/IGVFFI1618BPQM/) which do not have any `seqspecs`. Sequence files in a file set associated with single cell data are expected to link to a sequence specification file.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_missing_seqspec",
"path": "/auxiliary-sets/IGVFDS0373CFJS/"
}
]
},
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"component": "functional characterization",
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"@id": "/users/95d84f03-8ce0-489c-a755-f33ced139c5d/",
"title": "Gary Hon"
},
"title": "Multiscale functional characterization of genomic variation in human developmental disorders"
},
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{
"@id": "/construct-library-sets/IGVFDS0346MQBH/",
"accession": "IGVFDS0346MQBH",
"file_set_type": "guide library",
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{
"@id": "/tabular-files/IGVFFI9879UTKX/",
"accession": "IGVFFI9879UTKX",
"content_type": "guide RNA sequences",
"status": "in progress",
"summary": "guide RNA sequences"
}
],
"status": "preview",
"summary": "guide (sgRNA) library targeting accessible genome regions in many genomic loci"
}
],
"control_for": [],
"creation_timestamp": "2024-08-16T20:05:27.196999+00:00",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"aliases": [
"igvf:donor_of_WTC11"
],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
"file_set_type": "gRNA sequencing",
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{
"@id": "/sequence-files/IGVFFI3053AQRM/",
"accession": "IGVFFI3053AQRM",
"aliases": [
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],
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"controlled_access": false,
"creation_timestamp": "2025-03-12T22:35:07.241083+00:00",
"file_format": "fastq",
"file_size": 8393651692,
"href": "/sequence-files/IGVFFI3053AQRM/@@download/IGVFFI3053AQRM.fastq.gz",
"s3_uri": "s3://igvf-files/2025/03/12/bd762b56-3157-4306-ba8d-aa033ded7322/IGVFFI3053AQRM.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022841/",
"status": "preview",
"submitted_file_name": "/project/GCRB/Hon_lab/shared/data/sequencing_data/2024/2024-05-01-Novogene-NovaSeq.Hon19_20/sgRNA//LW438B_S12_L006_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7807KQXP/",
"accession": "IGVFFI7807KQXP",
"aliases": [
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],
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"creation_timestamp": "2025-03-12T22:34:30.556143+00:00",
"file_format": "fastq",
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"href": "/sequence-files/IGVFFI7807KQXP/@@download/IGVFFI7807KQXP.fastq.gz",
"s3_uri": "s3://igvf-files/2025/03/12/d4a0b100-e323-4d36-b74a-f936498cacbc/IGVFFI7807KQXP.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022841/",
"status": "preview",
"submitted_file_name": "/project/GCRB/Hon_lab/shared/data/sequencing_data/2024/2024-05-01-Novogene-NovaSeq.Hon19_20/sgRNA//LW438B_S12_L006_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7701ZMBO/",
"accession": "IGVFFI7701ZMBO",
"aliases": [
"gary-hon:LW438B_6_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-03-12T22:36:29.103810+00:00",
"file_format": "fastq",
"file_size": 8443791210,
"href": "/sequence-files/IGVFFI7701ZMBO/@@download/IGVFFI7701ZMBO.fastq.gz",
"s3_uri": "s3://igvf-files/2025/03/12/7a13a608-598e-4392-b96e-5214984f8574/IGVFFI7701ZMBO.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022841/",
"status": "preview",
"submitted_file_name": "/project/GCRB/Hon_lab/shared/data/sequencing_data/2024/2024-05-01-Novogene-NovaSeq.Hon19_20/sgRNA//LW438B_S12_L006_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1618BPQM/",
"accession": "IGVFFI1618BPQM",
"aliases": [
"gary-hon:LW438B_6_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-03-12T22:34:50.987839+00:00",
"file_format": "fastq",
"file_size": 959706748,
"href": "/sequence-files/IGVFFI1618BPQM/@@download/IGVFFI1618BPQM.fastq.gz",
"s3_uri": "s3://igvf-files/2025/03/12/b7475afd-cd4e-4556-99fc-7bd9c3b4959e/IGVFFI1618BPQM.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022841/",
"status": "preview",
"submitted_file_name": "/project/GCRB/Hon_lab/shared/data/sequencing_data/2024/2024-05-01-Novogene-NovaSeq.Hon19_20/sgRNA//LW438B_S12_L006_I2_001.fastq.gz",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS4252LFRU/"
],
"lab": {
"@id": "/labs/gary-hon/",
"title": "Gary Hon, UT"
},
"measurement_sets": [
{
"@id": "/measurement-sets/IGVFDS0961NLGM/",
"accession": "IGVFDS0961NLGM",
"aliases": [
"gary-hon:differentited_WTC11_CM_Pilot2_Mini_PB9_LW438"
],
"preferred_assay_title": "Perturb-seq",
"status": "preview"
}
],
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM2176YXFG/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM2176YXFG",
"aliases": [
"nikhil-munshi:differentited_WTC11_CM_Pilot2_Mini_PB9_LW438"
],
"cellular_sub_pool": "subpool_LW438",
"classifications": [
"differentiated cell specimen"
],
"institutional_certificates": [],
"modifications": [
{
"@id": "/crispr-modifications/0a63b754-eca4-44aa-bbc2-fccdc6c44fb5/",
"modality": "interference",
"status": "preview"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"aliases": [
"igvf:WTC11"
],
"status": "released",
"summary": "GM25256 (WTC-11)",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "preview",
"summary": "Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW438) modified with CRISPRi Sp-dCas9, 3 week(s) after transfection with a guide library",
"targeted_sample_term": {
"@id": "/sample-terms/CL_0000746/",
"status": "released",
"term_name": "cardiac muscle cell"
},
"taxa": "Homo sapiens"
}
],
"schema_version": "12",
"status": "preview",
"submitted_by": {
"@id": "/users/b05645f1-2d56-4a5e-b272-4601e555a3fa/",
"title": "Mpathi Nzima"
},
"submitted_files_timestamp": "2025-03-12T22:34:30.556143+00:00",
"summary": "gRNA sequencing for CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci",
"uuid": "b60e1d2a-3a0e-4d1e-b5c5-8e49523efe50"
}