{
"@context": "/terms/",
"@id": "/tabular-files/IGVFFI1466VTFO/",
"@type": [
"TabularFile",
"File",
"Item"
],
"accession": "IGVFFI1466VTFO",
"aliases": [
"charles-gersbach:cd8-tcell-b2m-grnas-metadata"
],
"assay_titles": [],
"assembly": "GRCh38",
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released tabular file [IGVFFI1466VTFO](/tabular-files/IGVFFI1466VTFO/) has in progress subobject curated set [IGVFDS3778BYII](/curated-sets/IGVFDS3778BYII/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/tabular-files/IGVFFI1466VTFO/"
}
],
"NOT_COMPLIANT": [
{
"category": "missing file format specifications",
"detail": "Tabular file [IGVFFI1466VTFO](/tabular-files/IGVFFI1466VTFO/) has no `file_format_specifications`. Tabular files are expected to link to a file format specifications document describing the headers of the file.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_file_no_file_format_specifications",
"path": "/tabular-files/IGVFFI1466VTFO/"
}
]
},
"award": {
"@id": "/awards/HG012053/",
"component": "functional characterization"
},
"barcode_map_for": [],
"checkfiles_version": "v14",
"content_md5sum": "82bbcce85b86c0b98bd14367dcb540c8",
"content_type": "guide RNA sequences",
"controlled_access": false,
"creation_timestamp": "2024-06-13T16:54:52.219295+00:00",
"file_format": "tsv",
"file_set": {
"@id": "/curated-sets/IGVFDS3778BYII/",
"accession": "IGVFDS3778BYII",
"file_set_type": "guide RNAs",
"samples": [
{
"@id": "/primary-cells/IGVFSM3427LEEW/",
"accession": "IGVFSM3427LEEW",
"classifications": [
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],
"modifications": [
{
"@id": "/crispr-modifications/95393c9a-637d-43f6-baf9-662e45d28d61/",
"modality": "interference",
"status": "released",
"summary": "CRISPRi Sa-dCas9"
}
],
"sample_terms": [
{
"@id": "/sample-terms/CL_0000909/",
"status": "released",
"term_name": "CD8-positive, alpha-beta memory T cell"
}
],
"status": "released",
"summary": "CD8-positive, alpha-beta memory T cell, Homo sapiens (sorting details: FACS bin for 0-10% expression of b2m) modified with CRISPRi Sa-dCas9, transduced (lentivirus) with a guide library (MOI of 0.4)",
"taxa": "Homo sapiens"
},
{
"@id": "/primary-cells/IGVFSM1190UUKW/",
"accession": "IGVFSM1190UUKW",
"classifications": [
"primary cell"
],
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{
"@id": "/crispr-modifications/95393c9a-637d-43f6-baf9-662e45d28d61/",
"modality": "interference",
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"summary": "CRISPRi Sa-dCas9"
}
],
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{
"@id": "/sample-terms/CL_0000909/",
"status": "released",
"term_name": "CD8-positive, alpha-beta memory T cell"
}
],
"status": "released",
"summary": "CD8-positive, alpha-beta memory T cell, Homo sapiens (sorting details: FACS bin for 0-10% expression of b2m) modified with CRISPRi Sa-dCas9, transduced (lentivirus) with a guide library (MOI of 0.4)",
"taxa": "Homo sapiens"
},
{
"@id": "/primary-cells/IGVFSM4508IIAY/",
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],
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{
"@id": "/crispr-modifications/95393c9a-637d-43f6-baf9-662e45d28d61/",
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"summary": "CRISPRi Sa-dCas9"
}
],
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{
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"status": "released",
"term_name": "CD8-positive, alpha-beta memory T cell"
}
],
"status": "released",
"summary": "CD8-positive, alpha-beta memory T cell, Homo sapiens (sorting details: FACS bin for 90-100% expression of b2m) modified with CRISPRi Sa-dCas9, transduced (lentivirus) with a guide library (MOI of 0.4)",
"taxa": "Homo sapiens"
},
{
"@id": "/primary-cells/IGVFSM7452ZWAU/",
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"primary cell"
],
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{
"@id": "/crispr-modifications/95393c9a-637d-43f6-baf9-662e45d28d61/",
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"status": "released",
"summary": "CRISPRi Sa-dCas9"
}
],
"sample_terms": [
{
"@id": "/sample-terms/CL_0000909/",
"status": "released",
"term_name": "CD8-positive, alpha-beta memory T cell"
}
],
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"summary": "CD8-positive, alpha-beta memory T cell, Homo sapiens (sorting details: FACS bin for 90-100% expression of b2m) modified with CRISPRi Sa-dCas9, transduced (lentivirus) with a guide library (MOI of 0.4)",
"taxa": "Homo sapiens"
},
{
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}
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"status": "released",
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}
],
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"taxa": "Homo sapiens"
},
{
"@id": "/primary-cells/IGVFSM2690MTOA/",
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"primary cell"
],
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{
"@id": "/crispr-modifications/95393c9a-637d-43f6-baf9-662e45d28d61/",
"modality": "interference",
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"summary": "CRISPRi Sa-dCas9"
}
],
"sample_terms": [
{
"@id": "/sample-terms/CL_0000909/",
"status": "released",
"term_name": "CD8-positive, alpha-beta memory T cell"
}
],
"status": "released",
"summary": "CD8-positive, alpha-beta memory T cell, Homo sapiens modified with CRISPRi Sa-dCas9, transduced (lentivirus) with a guide library (MOI of 0.4)",
"taxa": "Homo sapiens"
}
],
"status": "in progress",
"summary": "Homo sapiens GRCh38 custom guide RNAs",
"taxa": "Homo sapiens"
},
"file_size": 7187,
"gene_list_for": [],
"href": "/tabular-files/IGVFFI1466VTFO/@@download/IGVFFI1466VTFO.tsv.gz",
"input_file_for": [],
"integrated_in": [
{
"@id": "/construct-library-sets/IGVFDS5026WRUO/",
"file_set_type": "guide library",
"small_scale_gene_list": [
{
"@id": "/genes/ENSG00000166710/",
"status": "released",
"symbol": "B2M"
}
],
"status": "released",
"summary": "guide (sgRNA) library targeting transcription start sites in B2M"
}
],
"lab": {
"@id": "/labs/charles-gersbach/",
"title": "Charles Gersbach, Duke"
},
"loci_list_for": [],
"md5sum": "6bf311403b0c4dbaeddecacbb83733ca",
"release_timestamp": "2025-02-05T21:28:04.374032+00:00",
"s3_uri": "s3://igvf-files/2024/06/13/18789130-c322-4304-8d63-032a4b87223c/IGVFFI1466VTFO.tsv.gz",
"schema_version": "13",
"status": "released",
"submitted_by": {
"@id": "/users/29f5f78d-ac90-421e-90c6-a90e1dc407a7/",
"title": "Alejandro Barrera"
},
"submitted_file_name": "/data/reddylab/Alex/IGVF/data_submissions/reference_data/AIM_2_T_cell_project_1/B2M.screen.igvf_metadata.v3.txt.gz",
"summary": "GRCh38 guide RNA sequences",
"upload_status": "validated",
"uuid": "18789130-c322-4304-8d63-032a4b87223c"
}