{
"@context": "/terms/",
"@id": "/analysis-sets/IGVFDS7845HWEA/",
"@type": [
"AnalysisSet",
"FileSet",
"Item"
],
"accession": "IGVFDS7845HWEA",
"aliases": [
"harinder-singh:multiplexed_perturbation_scRNAseq_20240212_mira_analysis_set"
],
"assay_titles": [
"scRNA-seq"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "missing demultiplexed sample",
"detail": "Analysis set [IGVFDS7845HWEA](/analysis-sets/IGVFDS7845HWEA/) has `input_file_sets` with multiplexed samples: [IGVFSM5472KWSO](/multiplexed-samples/IGVFSM5472KWSO/) but no `demultiplexed_sample`. Analysis sets with multiplexed samples are expected to specify a demultiplexed sample.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_analysis_set_multiplexed_samples",
"path": "/analysis-sets/IGVFDS7845HWEA/"
},
{
"category": "mismatched status",
"detail": "Preview matrix file [IGVFFI2668HIRN](/matrix-files/IGVFFI2668HIRN/) has in progress subobject reference file [IGVFFI3944QOJF](/reference-files/IGVFFI3944QOJF/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/matrix-files/IGVFFI2668HIRN/"
}
]
},
"award": {
"@id": "/awards/HG012041/",
"component": "networks",
"contact_pi": {
"@id": "/users/5d389fb5-2279-4778-87ca-c20b8536998f/",
"title": "Harinder Singh"
},
"title": "Linking genome variation to transcriptional network dynamics in human B cells"
},
"control_for": [],
"controlled_access": true,
"creation_timestamp": "2025-04-02T12:08:57.099682+00:00",
"data_use_limitation_summaries": [
"HMB"
],
"donors": [
{
"@id": "/human-donors/IGVFDO9916UELD/",
"accession": "IGVFDO9916UELD",
"aliases": [
"harinder-singh:donor_1"
],
"sex": "male",
"status": "preview",
"taxa": "Homo sapiens"
}
],
"file_set_type": "principal analysis",
"files": [
{
"@id": "/matrix-files/IGVFFI2668HIRN/",
"accession": "IGVFFI2668HIRN",
"aliases": [
"harinder-singh:multiplexed_perturbation_scRNAseq_20240212_mira_mtx"
],
"content_type": "sparse gene count matrix",
"creation_timestamp": "2025-04-02T20:03:21.500507+00:00",
"derived_from": [
"/matrix-files/IGVFFI3987VJYL/"
],
"file_format": "h5ad",
"file_size": 2477706612,
"href": "/matrix-files/IGVFFI2668HIRN/@@download/IGVFFI2668HIRN.h5ad",
"md5sum": "686d9d7b93d680601d5024c3cc312d48",
"s3_uri": "s3://igvf-files/2025/04/02/f02b70f5-fe5a-4abb-af2b-556c6fc7c84c/IGVFFI2668HIRN.h5ad",
"status": "preview",
"submitted_file_name": "/media/RAIDArray/Nick/20240206_PerturbSeq_Exp2/h5_files/tf_perturbseq_rep2_post_mira.h5ad",
"upload_status": "validated"
}
],
"functional_assay_mechanisms": [],
"input_file_sets": [
{
"@id": "/analysis-sets/IGVFDS6790TZFT/",
"accession": "IGVFDS6790TZFT",
"aliases": [
"harinder-singh:multiplexed_perturbation_scRNAseq_20240212_cellranger_analysis_set"
],
"file_set_type": "intermediate analysis",
"status": "preview"
}
],
"input_for": [],
"lab": {
"@id": "/labs/harinder-singh/",
"title": "Harinder Singh, University of Pittsburgh"
},
"protocols": [],
"sample_summary": "Homo sapiens multiplexed sample of B cell",
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM5472KWSO/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM5472KWSO",
"aliases": [
"harinder-singh:multiplexed_perturbation_scRNAseq_20240212"
],
"classifications": [
"differentiated cell specimen",
"multiplexed sample"
],
"disease_terms": [],
"institutional_certificates": [
{
"@id": "/institutional-certificates/4786e123-f40d-4b08-aa06-b5f35e9cc453/",
"certificate_identifier": "IP108-01",
"controlled_access": true,
"data_use_limitation": "HMB",
"status": "in progress"
}
],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/CL_0000236/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "B cell",
"term_name": "B cell"
}
],
"status": "preview",
"summary": "multiplexed sample: Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 4 days; Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 6 days; ... and 12 more samples",
"taxa": "Homo sapiens",
"treatments": []
}
],
"schema_version": "9",
"status": "preview",
"submitted_by": {
"@id": "/users/d2668d67-5e6f-49e8-82ca-7bb12229f892/",
"title": "Nicholas Pease"
},
"submitted_files_timestamp": "2025-04-02T20:03:21.500507+00:00",
"summary": "scRNA-seq: sparse gene count matrix",
"uuid": "a0bfdbab-3e2b-47c2-9bf1-01c128a5bc43",
"workflows": [
{
"@id": "/workflows/IGVFWF0081UKFO/",
"accession": "IGVFWF0081UKFO",
"name": "Singh Perturbation Single Cell RNA-seq Workflow",
"status": "in progress",
"uniform_pipeline": false
}
]
}