{
"@context": "/terms/",
"@id": "/matrix-files/IGVFFI0670VYBH/",
"@type": [
"MatrixFile",
"File",
"Item"
],
"accession": "IGVFFI0670VYBH",
"aliases": [
"gary-hon:H9_shen_construct_sgRNA_PB_PrimaryAnalysis_h5ad"
],
"analysis_step_version": "/analysis-step-versions/4cfc022a-ff63-4d13-99f7-257a6bfe4bd7/",
"assay_titles": [
"Perturb-seq"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Preview matrix file [IGVFFI0670VYBH](/matrix-files/IGVFFI0670VYBH/) has in progress subobject analysis step version [4cfc022a-ff63-4d13-99f7-257a6bfe4bd7](/analysis-step-versions/4cfc022a-ff63-4d13-99f7-257a6bfe4bd7/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/matrix-files/IGVFFI0670VYBH/"
}
]
},
"award": {
"@id": "/awards/HG011996/",
"component": "functional characterization"
},
"content_summary": "cell by gene expression in sparse gene count matrix",
"content_type": "sparse gene count matrix",
"creation_timestamp": "2024-12-17T22:42:18.099309+00:00",
"file_format": "h5ad",
"file_set": {
"@id": "/analysis-sets/IGVFDS4762GRIW/",
"accession": "IGVFDS4762GRIW",
"file_set_type": "principal analysis",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM9532RAXS/",
"accession": "IGVFSM9532RAXS",
"classifications": [
"differentiated cell specimen"
],
"modifications": [
{
"@id": "/crispr-modifications/0a63b754-eca4-44aa-bbc2-fccdc6c44fb5/",
"modality": "interference",
"status": "preview",
"summary": "CRISPRi Sp-dCas9"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
}
],
"status": "preview",
"summary": "H9 differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW275), female, Homo sapiens modified with CRISPRi Sp-dCas9, transfected with a guide library",
"targeted_sample_term": {
"@id": "/sample-terms/CL_0000746/",
"status": "released",
"term_name": "cardiac muscle cell"
},
"taxa": "Homo sapiens"
},
{
"@id": "/in-vitro-systems/IGVFSM1063UQVF/",
"accession": "IGVFSM1063UQVF",
"classifications": [
"differentiated cell specimen"
],
"modifications": [
{
"@id": "/crispr-modifications/0a63b754-eca4-44aa-bbc2-fccdc6c44fb5/",
"modality": "interference",
"status": "preview",
"summary": "CRISPRi Sp-dCas9"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
}
],
"status": "preview",
"summary": "H9 differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW273), female, Homo sapiens modified with CRISPRi Sp-dCas9, transfected with a guide library",
"targeted_sample_term": {
"@id": "/sample-terms/CL_0000746/",
"status": "released",
"term_name": "cardiac muscle cell"
},
"taxa": "Homo sapiens"
},
{
"@id": "/in-vitro-systems/IGVFSM5849QIEI/",
"accession": "IGVFSM5849QIEI",
"classifications": [
"differentiated cell specimen"
],
"modifications": [
{
"@id": "/crispr-modifications/0a63b754-eca4-44aa-bbc2-fccdc6c44fb5/",
"modality": "interference",
"status": "preview",
"summary": "CRISPRi Sp-dCas9"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
}
],
"status": "preview",
"summary": "H9 differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW274), female, Homo sapiens modified with CRISPRi Sp-dCas9, transfected with a guide library",
"targeted_sample_term": {
"@id": "/sample-terms/CL_0000746/",
"status": "released",
"term_name": "cardiac muscle cell"
},
"taxa": "Homo sapiens"
},
{
"@id": "/in-vitro-systems/IGVFSM6716LOHW/",
"accession": "IGVFSM6716LOHW",
"classifications": [
"differentiated cell specimen"
],
"modifications": [
{
"@id": "/crispr-modifications/0a63b754-eca4-44aa-bbc2-fccdc6c44fb5/",
"modality": "interference",
"status": "preview",
"summary": "CRISPRi Sp-dCas9"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
}
],
"status": "preview",
"summary": "H9 differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW276), female, Homo sapiens modified with CRISPRi Sp-dCas9, transfected with a guide library",
"targeted_sample_term": {
"@id": "/sample-terms/CL_0000746/",
"status": "released",
"term_name": "cardiac muscle cell"
},
"taxa": "Homo sapiens"
}
],
"status": "preview",
"summary": "interference Perturb-seq: filtered feature barcode matrix, raw feature barcode matrix, sparse gene count matrix"
},
"file_size": 8410152219,
"gene_list_for": [],
"href": "/matrix-files/IGVFFI0670VYBH/@@download/IGVFFI0670VYBH.h5ad",
"input_file_for": [],
"integrated_in": [],
"lab": {
"@id": "/labs/gary-hon/",
"title": "Gary Hon, UT"
},
"loci_list_for": [],
"md5sum": "f2d2fe00f49db2914f6d1a6e8dbd61a8",
"principal_dimension": "cell",
"reference_files": [
"/reference-files/IGVFFI6815WBWB/"
],
"s3_uri": "s3://igvf-files/2024/12/17/857368ea-76a3-4358-9613-c2a8a709cf0e/IGVFFI0670VYBH.h5ad",
"schema_version": "7",
"secondary_dimensions": [
"gene expression"
],
"status": "preview",
"submitted_by": {
"@id": "/users/b05645f1-2d56-4a5e-b272-4601e555a3fa/",
"title": "Mpathi Nzima"
},
"submitted_file_name": "/project/shared/gcrb_igvf/data/shared/CMPILOT2_Mini_PB_scRNAseq/H5AD/V0_cmpilot2_mini_sgRNACells_PB.h5ad",
"summary": "cell by gene expression in sparse gene count matrix",
"upload_status": "validated",
"uuid": "857368ea-76a3-4358-9613-c2a8a709cf0e"
}