{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS2623QODS/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS2623QODS",
"aliases": [
"ansuman-satpathy:snRNA-seq_igvf15_10x1"
],
"assay_term": {
"@id": "/assay-terms/OBI_0003109/",
"assay_slims": [
"gene expression"
],
"status": "released",
"term_name": "single-nucleus RNA sequencing assay"
},
"audit": {},
"auxiliary_sets": [
{
"@id": "/auxiliary-sets/IGVFDS2440YLWS/",
"accession": "IGVFDS2440YLWS",
"aliases": [
"ansuman-satpathy:multiseq_igvf15_10x1"
],
"file_set_type": "lipid-conjugated oligo sequencing",
"status": "released"
}
],
"award": {
"@id": "/awards/HG012076/",
"component": "mapping",
"contact_pi": {
"@id": "/users/eae4c275-1e07-45e4-ae67-3e437a8680bb/",
"title": "Ansuman Satpathy"
},
"title": "Single-cell Mapping Center for Human Regulatory Elements and Gene Activity"
},
"control_for": [],
"creation_timestamp": "2025-01-27T22:55:39.300541+00:00",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"aliases": [
"igvf:donor_of_WTC11"
],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
"files": [
{
"@id": "/sequence-files/IGVFFI8681HIWH/",
"accession": "IGVFFI8681HIWH",
"aliases": [
"ansuman-satpathy:igvf_exp15_rna_10x1_NGS1_i2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-27T22:57:12.918657+00:00",
"file_format": "fastq",
"file_size": 2230442975,
"href": "/sequence-files/IGVFFI8681HIWH/@@download/IGVFFI8681HIWH.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/27/aa19935f-3f1c-464c-b208-d2a5e43b2cbd/IGVFFI8681HIWH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf15/GEX/CMAS17_GEX1_S1_L001_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5859SOOF/",
"accession": "IGVFFI5859SOOF",
"aliases": [
"ansuman-satpathy:igvf_exp15_rna_10x1_NGS1_r1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-27T22:57:56.089773+00:00",
"file_format": "fastq",
"file_size": 8445169697,
"href": "/sequence-files/IGVFFI5859SOOF/@@download/IGVFFI5859SOOF.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/27/d1501a2c-d5d6-42d3-86ec-d09320858f2f/IGVFFI5859SOOF.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf15/GEX/CMAS17_GEX1_S1_L001_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3335AQLU/",
"accession": "IGVFFI3335AQLU",
"aliases": [
"ansuman-satpathy:igvf_exp15_rna_10x1_NGS1_r2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-27T22:59:33.681973+00:00",
"file_format": "fastq",
"file_size": 18280366536,
"href": "/sequence-files/IGVFFI3335AQLU/@@download/IGVFFI3335AQLU.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/27/c9bc4653-6713-47a5-974d-155ee7b0554a/IGVFFI3335AQLU.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf15/GEX/CMAS17_GEX1_S1_L001_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7711ZJTT/",
"accession": "IGVFFI7711ZJTT",
"aliases": [
"ansuman-satpathy:igvf_exp15_rna_10x1_NGS1_i1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-27T22:56:41.056288+00:00",
"file_format": "fastq",
"file_size": 2191485917,
"href": "/sequence-files/IGVFFI7711ZJTT/@@download/IGVFFI7711ZJTT.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/27/a4744418-3de9-4918-b01d-0332a96723d6/IGVFFI7711ZJTT.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf15/GEX/CMAS17_GEX1_S1_L001_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3835VFVF/",
"accession": "IGVFFI3835VFVF",
"aliases": [
"ansuman-satpathy:igvf_exp15_rna_10x1_NGS2_i1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-27T23:01:46.864588+00:00",
"file_format": "fastq",
"file_size": 2181581395,
"href": "/sequence-files/IGVFFI3835VFVF/@@download/IGVFFI3835VFVF.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/27/e0f79d9b-4107-495e-91b6-bb441d3716c8/IGVFFI3835VFVF.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf15/GEX/CMAS17_GEX1_S1_L002_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1508WDYW/",
"accession": "IGVFFI1508WDYW",
"aliases": [
"ansuman-satpathy:igvf_exp15_rna_10x1_NGS2_i2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-27T23:02:17.746613+00:00",
"file_format": "fastq",
"file_size": 2255601759,
"href": "/sequence-files/IGVFFI1508WDYW/@@download/IGVFFI1508WDYW.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/27/de03195b-16ed-4da0-9938-ae0b96c4f4ad/IGVFFI1508WDYW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf15/GEX/CMAS17_GEX1_S1_L002_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1830GJBO/",
"accession": "IGVFFI1830GJBO",
"aliases": [
"ansuman-satpathy:igvf_exp15_rna_10x1_NGS2_r1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-27T23:02:58.407964+00:00",
"file_format": "fastq",
"file_size": 8418099352,
"href": "/sequence-files/IGVFFI1830GJBO/@@download/IGVFFI1830GJBO.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/27/9aff5a81-241c-4380-b8bc-95d15db85da1/IGVFFI1830GJBO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf15/GEX/CMAS17_GEX1_S1_L002_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4542ISGP/",
"accession": "IGVFFI4542ISGP",
"aliases": [
"ansuman-satpathy:igvf_exp15_rna_10x1_NGS2_r2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-27T23:04:37.130366+00:00",
"file_format": "fastq",
"file_size": 18199490487,
"href": "/sequence-files/IGVFFI4542ISGP/@@download/IGVFFI4542ISGP.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/27/d723ffc8-8ede-40c9-bc45-26962431f49e/IGVFFI4542ISGP.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf15/GEX/CMAS17_GEX1_S1_L002_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI4298IIZN/",
"accession": "IGVFFI4298IIZN",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp15_rna_10x1_NGS2"
],
"content_type": "seqspec",
"creation_timestamp": "2025-02-26T01:44:42.777639+00:00",
"file_format": "yaml",
"file_size": 1396,
"href": "/configuration-files/IGVFFI4298IIZN/@@download/IGVFFI4298IIZN.yaml.gz",
"s3_uri": "s3://igvf-files/2025/02/26/691bedd0-82b6-4093-a44b-5ba897afbb81/IGVFFI4298IIZN.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec_new/igvf_exp15_rna_10x1_NGS2_rna_seqspec.yaml.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI9403AUFV/",
"accession": "IGVFFI9403AUFV",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp15_rna_10x1_NGS1"
],
"content_type": "seqspec",
"creation_timestamp": "2025-02-26T01:44:39.011655+00:00",
"file_format": "yaml",
"file_size": 1398,
"href": "/configuration-files/IGVFFI9403AUFV/@@download/IGVFFI9403AUFV.yaml.gz",
"s3_uri": "s3://igvf-files/2025/02/26/442ce881-1d1c-419a-bbb9-aa94be924f1f/IGVFFI9403AUFV.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec_new/igvf_exp15_rna_10x1_NGS1_rna_seqspec.yaml.gz",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS6039JXBR/"
],
"lab": {
"@id": "/labs/ansuman-satpathy/",
"title": "Ansuman Satpathy, Stanford"
},
"multiome_size": 2,
"onlist_files": [
"/tabular-files/IGVFFI8751YQRY/"
],
"onlist_method": "no combination",
"preferred_assay_title": "10x multiome with MULTI-seq",
"protocols": [
"https://www.protocols.io/view/multi-seq-for-multiome-igvf-round-2-experiment-1-dfqp3mvn"
],
"related_multiome_datasets": [
{
"@id": "/measurement-sets/IGVFDS4338ZSWY/",
"accession": "IGVFDS4338ZSWY",
"status": "released"
}
],
"release_timestamp": "2025-03-07T01:15:03.207573+00:00",
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM2174QALS/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM2174QALS",
"aliases": [
"ansuman-satpathy:multiplexed_sample_igvf15_10x1"
],
"cellular_sub_pool": "1",
"classifications": [
"differentiated cell specimen",
"multiplexed sample"
],
"disease_terms": [],
"institutional_certificates": [],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"aliases": [
"igvf:WTC11"
],
"status": "released",
"summary": "GM25256 (WTC-11)",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "multiplexed sample: GM25256 (WTC-11) differentiated cell specimen induced to liver for 18 days, male, Homo sapiens; GM25256 (WTC-11) differentiated cell specimen induced to liver for 13 days, male, Homo sapiens; ... and 10 more samples",
"taxa": "Homo sapiens",
"treatments": []
}
],
"schema_version": "25",
"status": "released",
"submitted_by": {
"@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
"title": "Christopher Mcginnis"
},
"submitted_files_timestamp": "2025-01-27T22:56:41.056288+00:00",
"summary": "single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)",
"uuid": "3e8ec68f-c2c5-4754-8dd8-8010cd6f8243"
}