{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS0095QJOI/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS0095QJOI",
"aliases": [
"ali-mortazavi:B01_13F_illumina"
],
"assay_term": {
"@id": "/assay-terms/OBI_0003109/",
"status": "released",
"term_name": "single-nucleus RNA sequencing assay"
},
"audit": {
"INTERNAL_ACTION": [
{
"category": "NTR term ID",
"detail": "Sample term for [NTR_0000646](/sample-terms/NTR_0000646/) has been newly requested. Ontology terms with a newly requested term ID are expected to have it updated following its addition to the appropriate ontology database.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_ntr_term_id",
"path": "/sample-terms/NTR_0000646/"
}
]
},
"award": {
"@id": "/awards/HG012077/",
"component": "mapping",
"contact_pi": {
"@id": "/users/2c33e192-e815-4384-a220-72a0992cbe24/",
"title": "Ali Mortazavi"
},
"title": "Center for Mouse Genomic Variation at Single Cell Resolution"
},
"control_for": [],
"creation_timestamp": "2023-08-25T17:26:23.821482+00:00",
"donors": [
{
"@id": "/rodent-donors/IGVFDO3261YWHI/",
"accession": "IGVFDO3261YWHI",
"aliases": [
"ali-mortazavi:119_B6J_10M"
],
"sex": "male",
"status": "released",
"taxa": "Mus musculus"
},
{
"@id": "/rodent-donors/IGVFDO7361LABA/",
"accession": "IGVFDO7361LABA",
"aliases": [
"ali-mortazavi:118_B6J_10F"
],
"sex": "female",
"status": "released",
"taxa": "Mus musculus"
},
{
"@id": "/rodent-donors/IGVFDO9333ACQP/",
"accession": "IGVFDO9333ACQP",
"aliases": [
"ali-mortazavi:120_B6J_10F"
],
"sex": "female",
"status": "released",
"taxa": "Mus musculus"
},
{
"@id": "/rodent-donors/IGVFDO1486RZJK/",
"accession": "IGVFDO1486RZJK",
"aliases": [
"ali-mortazavi:105_CASTJ_10M"
],
"sex": "male",
"status": "released",
"taxa": "Mus musculus"
},
{
"@id": "/rodent-donors/IGVFDO6942KQBN/",
"accession": "IGVFDO6942KQBN",
"aliases": [
"ali-mortazavi:117_B6J_10M"
],
"sex": "male",
"status": "released",
"taxa": "Mus musculus"
},
{
"@id": "/rodent-donors/IGVFDO8652OFEQ/",
"accession": "IGVFDO8652OFEQ",
"aliases": [
"ali-mortazavi:106_CASTJ_10F"
],
"sex": "female",
"status": "released",
"taxa": "Mus musculus"
},
{
"@id": "/rodent-donors/IGVFDO0493VGMC/",
"accession": "IGVFDO0493VGMC",
"aliases": [
"ali-mortazavi:108_CASTJ_10F"
],
"sex": "female",
"status": "released",
"taxa": "Mus musculus"
},
{
"@id": "/rodent-donors/IGVFDO4816HOFW/",
"accession": "IGVFDO4816HOFW",
"aliases": [
"ali-mortazavi:107_CASTJ_10M"
],
"sex": "male",
"status": "released",
"taxa": "Mus musculus"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
"files": [
{
"@id": "/sequence-files/IGVFFI7767JBTL/",
"accession": "IGVFFI7767JBTL",
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-08-26T00:04:25.101779+00:00",
"file_format": "fastq",
"file_size": 7582615711,
"href": "/sequence-files/IGVFFI7767JBTL/@@download/IGVFFI7767JBTL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/08/26/a50df75e-3449-4a84-98d5-c224f9f37744/IGVFFI7767JBTL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0010963/",
"status": "released",
"term_name": "Illumina NextSeq 2000"
},
"status": "released",
"submitted_file_name": "igvf_b01/next2/igvf_b01_B06_D_next_N2_R2.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3652TRUL/",
"accession": "IGVFFI3652TRUL",
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-08-25T23:47:24.740165+00:00",
"file_format": "fastq",
"file_size": 13436717586,
"href": "/sequence-files/IGVFFI3652TRUL/@@download/IGVFFI3652TRUL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/08/25/e7ab009c-1c1f-4dc8-8526-9b27b7f9c1c3/IGVFFI3652TRUL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0010963/",
"status": "released",
"term_name": "Illumina NextSeq 2000"
},
"status": "released",
"submitted_file_name": "igvf_b01/next2/igvf_b01_B06_D_next_N2_R1.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2243SPLE/",
"accession": "IGVFFI2243SPLE",
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-08-25T23:25:26.688327+00:00",
"file_format": "fastq",
"file_size": 12484778263,
"href": "/sequence-files/IGVFFI2243SPLE/@@download/IGVFFI2243SPLE.fastq.gz",
"s3_uri": "s3://igvf-files/2023/08/25/65dff02e-98cd-4bc4-9c08-8f14133d85ff/IGVFFI2243SPLE.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0010963/",
"status": "released",
"term_name": "Illumina NextSeq 2000"
},
"status": "released",
"submitted_file_name": "igvf_b01/next1/igvf_b01_B06_D_next_N1_R1.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0560ZHZU/",
"accession": "IGVFFI0560ZHZU",
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-08-25T23:38:46.068222+00:00",
"file_format": "fastq",
"file_size": 6827778143,
"href": "/sequence-files/IGVFFI0560ZHZU/@@download/IGVFFI0560ZHZU.fastq.gz",
"s3_uri": "s3://igvf-files/2023/08/25/cc41bc6c-5348-45f3-a21e-d7e0a896348d/IGVFFI0560ZHZU.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0010963/",
"status": "released",
"term_name": "Illumina NextSeq 2000"
},
"status": "released",
"submitted_file_name": "igvf_b01/next1/igvf_b01_B06_D_next_N1_R2.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI4507THFG/",
"accession": "IGVFFI4507THFG",
"content_type": "seqspec",
"creation_timestamp": "2024-08-30T21:35:25.606597+00:00",
"file_format": "yaml",
"file_size": 1113,
"href": "/configuration-files/IGVFFI4507THFG/@@download/IGVFFI4507THFG.yaml.gz",
"s3_uri": "s3://igvf-files/2024/08/30/b2a7dda0-0611-467e-ad9b-6c8aca0a1f2e/IGVFFI4507THFG.yaml.gz",
"status": "released",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI4474RJCC/",
"accession": "IGVFFI4474RJCC",
"content_type": "seqspec",
"creation_timestamp": "2024-08-30T21:35:26.825723+00:00",
"file_format": "yaml",
"file_size": 1112,
"href": "/configuration-files/IGVFFI4474RJCC/@@download/IGVFFI4474RJCC.yaml.gz",
"s3_uri": "s3://igvf-files/2024/08/30/04b9f16a-50b2-4da1-b921-f39dae5f96c9/IGVFFI4474RJCC.yaml.gz",
"status": "released",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS3636WTST/"
],
"lab": {
"@id": "/labs/ali-mortazavi/",
"title": "Ali Mortazavi, UCI"
},
"notes": "Preferred_assay_titles enum Parse Split-seq has been renamed to be Parse SPLiT-seq.",
"preferred_assay_title": "Parse SPLiT-seq",
"protocols": [
"https://www.protocols.io/view/evercode-single-index-pcr-5jyl82k9rl2w/v1",
"https://www.protocols.io/view/evercode-wt-v2-2-1-eq2lyj9relx9/v1",
"https://www.protocols.io/view/protocol-to-isolate-and-fix-nuclei-from-cryopreser-4r3l22y2pl1y/v1"
],
"release_timestamp": "2024-05-08T23:38:40.862166+00:00",
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM6546CQJB/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM6546CQJB",
"aliases": [
"ali-mortazavi:subpool_b01_13f"
],
"classifications": [
"multiplexed sample"
],
"construct_library_sets": [],
"disease_terms": [],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/NTR_0000646/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "left cerebral cortex",
"term_name": "left cerebral cortex"
}
],
"status": "released",
"summary": "multiplexed sample: left cerebral cortex tissue, female, Mus musculus CASTJ (72 days); left cerebral cortex tissue, male, Mus musculus B6J (72 days); ... and 6 more samples",
"taxa": "Mus musculus",
"treatments": []
}
],
"schema_version": "23",
"sequencing_library_types": [
"mRNA enriched"
],
"status": "released",
"submitted_by": {
"@id": "/users/ebd1025b-e3ab-4e51-bfcd-1415f278281a/",
"title": "Diane Trout"
},
"submitted_files_timestamp": "2023-08-25T23:25:26.688327+00:00",
"summary": "Parse SPLiT-seq",
"uuid": "eb8d7e3a-1c95-420c-9444-c1911c636904"
}