{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS9522BMQK/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS9522BMQK",
"aliases": [
"ali-mortazavi:B01_13G_illumina"
],
"assay_term": {
"@id": "/assay-terms/OBI_0003109/",
"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": "2023-08-25T17:26:24.040554+00:00",
"donors": [
{
"@id": "/rodent-donors/IGVFDO7361LABA/",
"accession": "IGVFDO7361LABA",
"aliases": [
"ali-mortazavi:118_B6J_10F"
],
"sex": "female",
"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/IGVFDO1486RZJK/",
"accession": "IGVFDO1486RZJK",
"aliases": [
"ali-mortazavi:105_CASTJ_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"
},
{
"@id": "/rodent-donors/IGVFDO9333ACQP/",
"accession": "IGVFDO9333ACQP",
"aliases": [
"ali-mortazavi:120_B6J_10F"
],
"sex": "female",
"status": "released",
"taxa": "Mus musculus"
},
{
"@id": "/rodent-donors/IGVFDO3261YWHI/",
"accession": "IGVFDO3261YWHI",
"aliases": [
"ali-mortazavi:119_B6J_10M"
],
"sex": "male",
"status": "released",
"taxa": "Mus musculus"
}
],
"file_set_type": "experimental data",
"files": [
{
"@id": "/sequence-files/IGVFFI5523CTAF/",
"accession": "IGVFFI5523CTAF",
"content_type": "reads",
"creation_timestamp": "2023-08-26T00:37:10.511959+00:00",
"file_format": "fastq",
"file_size": 11764063367,
"href": "/sequence-files/IGVFFI5523CTAF/@@download/IGVFFI5523CTAF.fastq.gz",
"s3_uri": "s3://igvf-files/2023/08/26/8e5c05f5-df92-461c-9194-aaf72b46ea69/IGVFFI5523CTAF.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0010963/",
"term_name": "Illumina NextSeq 2000"
},
"submitted_file_name": "igvf_b01/next2/igvf_b01_B07_E_next_N2_R1.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6880QBPQ/",
"accession": "IGVFFI6880QBPQ",
"content_type": "reads",
"creation_timestamp": "2023-08-26T00:14:00.386223+00:00",
"file_format": "fastq",
"file_size": 12396120541,
"href": "/sequence-files/IGVFFI6880QBPQ/@@download/IGVFFI6880QBPQ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/08/26/2b23e4ca-c82f-46fc-a785-0b7851b5ff9c/IGVFFI6880QBPQ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0010963/",
"term_name": "Illumina NextSeq 2000"
},
"submitted_file_name": "igvf_b01/next1/igvf_b01_B07_E_next_N1_R1.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5362BFQL/",
"accession": "IGVFFI5362BFQL",
"content_type": "reads",
"creation_timestamp": "2023-08-26T00:28:57.628600+00:00",
"file_format": "fastq",
"file_size": 6753074942,
"href": "/sequence-files/IGVFFI5362BFQL/@@download/IGVFFI5362BFQL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/08/26/a61bf6c2-394a-49d6-a4a0-095ecf31cf02/IGVFFI5362BFQL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0010963/",
"term_name": "Illumina NextSeq 2000"
},
"submitted_file_name": "igvf_b01/next1/igvf_b01_B07_E_next_N1_R2.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2195RYKC/",
"accession": "IGVFFI2195RYKC",
"content_type": "reads",
"creation_timestamp": "2023-08-26T00:50:33.624723+00:00",
"file_format": "fastq",
"file_size": 6614805440,
"href": "/sequence-files/IGVFFI2195RYKC/@@download/IGVFFI2195RYKC.fastq.gz",
"s3_uri": "s3://igvf-files/2023/08/26/138b8dba-93ee-4171-a622-dad3d3d563c0/IGVFFI2195RYKC.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0010963/",
"term_name": "Illumina NextSeq 2000"
},
"submitted_file_name": "igvf_b01/next2/igvf_b01_B07_E_next_N2_R2.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI9335YMXJ/",
"accession": "IGVFFI9335YMXJ",
"content_type": "seqspec",
"creation_timestamp": "2024-09-03T18:22:56.379041+00:00",
"file_format": "yaml",
"file_size": 1111,
"href": "/configuration-files/IGVFFI9335YMXJ/@@download/IGVFFI9335YMXJ.yaml.gz",
"s3_uri": "s3://igvf-files/2024/09/03/a2d18776-3ff6-4d10-9d5f-17e6c0384f28/IGVFFI9335YMXJ.yaml.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI8707OQUG/",
"accession": "IGVFFI8707OQUG",
"content_type": "seqspec",
"creation_timestamp": "2024-09-03T18:22:54.864559+00:00",
"file_format": "yaml",
"file_size": 1113,
"href": "/configuration-files/IGVFFI8707OQUG/@@download/IGVFFI8707OQUG.yaml.gz",
"s3_uri": "s3://igvf-files/2024/09/03/91f95721-05cf-4a34-9e43-728f78ac6253/IGVFFI8707OQUG.yaml.gz",
"upload_status": "validated"
}
],
"input_file_set_for": [
"/analysis-sets/IGVFDS5115IZVN/"
],
"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/cdna-exome-capture-v1-0-1-36wgq3b83lk5/v1",
"https://www.protocols.io/view/protocol-to-isolate-and-fix-nuclei-from-cryopreser-4r3l22y2pl1y/v1"
],
"release_timestamp": "2024-05-08T23:38:41.523079+00:00",
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM8722YQAW/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM8722YQAW",
"aliases": [
"ali-mortazavi:subpool_b01_13g"
],
"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",
"treatments": []
}
],
"schema_version": "21",
"sequencing_library_types": [
"exome capture"
],
"status": "released",
"submitted_by": {
"@id": "/users/ebd1025b-e3ab-4e51-bfcd-1415f278281a/",
"title": "Diane Trout"
},
"submitted_files_timestamp": "2023-08-26T00:14:00.386223+00:00",
"summary": "Parse SPLiT-seq",
"uuid": "736ce0d7-af0c-44a2-844e-affb2cccdb0c"
}