{
"@context": "/terms/",
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"@type": [
"AuxiliarySet",
"FileSet",
"Item"
],
"accession": "IGVFDS1672IHVM",
"aliases": [
"gary-hon:differentited_WTC11_CM_Pilot2_Mini_LPv4_sgRNA_LW430"
],
"audit": {
"NOT_COMPLIANT": [
{
"category": "missing sequence specification",
"detail": "Auxiliary set [IGVFDS1672IHVM](/auxiliary-sets/IGVFDS1672IHVM/) has sequence file(s): [IGVFFI5354EYBB](/sequence-files/IGVFFI5354EYBB/), [IGVFFI5190ALBH](/sequence-files/IGVFFI5190ALBH/), [IGVFFI3295XOIB](/sequence-files/IGVFFI3295XOIB/), [IGVFFI7350HFKN](/sequence-files/IGVFFI7350HFKN/) 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/IGVFDS1672IHVM/"
}
]
},
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"component": "functional characterization",
"contact_pi": {
"@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",
"integrated_content_files": [
{
"@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": "2024-08-16T20:05:12.338049+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",
"files": [
{
"@id": "/sequence-files/IGVFFI5354EYBB/",
"accession": "IGVFFI5354EYBB",
"aliases": [
"gary-hon:LW430B_6_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-14T21:38:16.038630+00:00",
"file_format": "fastq",
"file_size": 532673546,
"href": "/sequence-files/IGVFFI5354EYBB/@@download/IGVFFI5354EYBB.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/14/372af4f1-5000-4c70-b726-3b6792e1e53e/IGVFFI5354EYBB.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//LW430B_S16_L006_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5190ALBH/",
"accession": "IGVFFI5190ALBH",
"aliases": [
"gary-hon:LW430B_6_I1"
],
"content_type": "reads",
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"creation_timestamp": "2025-01-14T21:38:02.389705+00:00",
"file_format": "fastq",
"file_size": 468936756,
"href": "/sequence-files/IGVFFI5190ALBH/@@download/IGVFFI5190ALBH.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/14/fab9450b-560c-4481-b113-d5c996017ebb/IGVFFI5190ALBH.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//LW430B_S16_L006_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3295XOIB/",
"accession": "IGVFFI3295XOIB",
"aliases": [
"gary-hon:LW430B_6_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-14T21:38:30.063353+00:00",
"file_format": "fastq",
"file_size": 4155250932,
"href": "/sequence-files/IGVFFI3295XOIB/@@download/IGVFFI3295XOIB.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/14/e2021c12-9fb4-4d9a-b9c9-7ffde5c5f4ae/IGVFFI3295XOIB.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//LW430B_S16_L006_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7350HFKN/",
"accession": "IGVFFI7350HFKN",
"aliases": [
"gary-hon:LW430B_6_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-14T21:39:14.125361+00:00",
"file_format": "fastq",
"file_size": 4284300398,
"href": "/sequence-files/IGVFFI7350HFKN/@@download/IGVFFI7350HFKN.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/14/c4e5edb0-cb45-4b07-88c9-d69d596dc8d7/IGVFFI7350HFKN.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//LW430B_S16_L006_R2_001.fastq.gz",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS5498SDRJ/"
],
"lab": {
"@id": "/labs/gary-hon/",
"title": "Gary Hon, UT"
},
"measurement_sets": [
{
"@id": "/measurement-sets/IGVFDS2827ZGPM/",
"accession": "IGVFDS2827ZGPM",
"aliases": [
"gary-hon:differentited_WTC11_CM_Pilot2_Mini_LPv4_LW430"
],
"preferred_assay_title": "Perturb-seq",
"status": "preview"
}
],
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM2127MVQH/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM2127MVQH",
"aliases": [
"nikhil-munshi:differentited_WTC11_CM_Pilot2_Mini_LPv4_LW430"
],
"cellular_sub_pool": "subpool_LW430",
"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_LW430) modified with CRISPRi Sp-dCas9, transduced (lentivirus) 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": "2025-01-14T21:38:02.389705+00:00",
"summary": "gRNA sequencing for CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci",
"uuid": "784af478-cefe-40f2-8b25-37aa17b96c59"
}