{
"@context": "/terms/",
"@id": "/auxiliary-sets/IGVFDS3446FAJU/",
"@type": [
"AuxiliarySet",
"FileSet",
"Item"
],
"accession": "IGVFDS3446FAJU",
"aliases": [
"ansuman-satpathy:multiseq_igvf9_10x2"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released multiplexed sample [IGVFSM2512OHNK](/multiplexed-samples/IGVFSM2512OHNK/) has in progress subobject tabular file [IGVFFI8866FURX](/tabular-files/IGVFFI8866FURX/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/multiplexed-samples/IGVFSM2512OHNK/"
}
]
},
"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": [],
"controlled_access": true,
"creation_timestamp": "2024-07-23T20:58:43.289794+00:00",
"data_use_limitation_summaries": [
"GRU"
],
"donors": [
{
"@id": "/human-donors/IGVFDO1718HCES/",
"accession": "IGVFDO1718HCES",
"aliases": [
"ansuman-satpathy:singh_bcell_donor_1"
],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
"file_set_type": "lipid-conjugated oligo sequencing",
"files": [
{
"@id": "/sequence-files/IGVFFI2539LKSK/",
"accession": "IGVFFI2539LKSK",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS1_r1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:41:52.589389+00:00",
"file_format": "fastq",
"file_size": 501932274,
"href": "/sequence-files/IGVFFI2539LKSK/@@download/IGVFFI2539LKSK.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/d53b1b6f-b5b5-4691-abeb-33ca29e8eefb/IGVFFI2539LKSK.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L001_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7210ATDK/",
"accession": "IGVFFI7210ATDK",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS3_r2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:43:11.033772+00:00",
"file_format": "fastq",
"file_size": 816800368,
"href": "/sequence-files/IGVFFI7210ATDK/@@download/IGVFFI7210ATDK.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/8a8722e5-348e-453e-8aea-9197bb0e587c/IGVFFI7210ATDK.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L003_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5623NAWQ/",
"accession": "IGVFFI5623NAWQ",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS2_r1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:42:23.699509+00:00",
"file_format": "fastq",
"file_size": 534226552,
"href": "/sequence-files/IGVFFI5623NAWQ/@@download/IGVFFI5623NAWQ.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/73d8ca72-2bad-4209-bdfc-d5a40e5c8d46/IGVFFI5623NAWQ.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L002_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2295NKXK/",
"accession": "IGVFFI2295NKXK",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS2_r2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:42:32.735849+00:00",
"file_format": "fastq",
"file_size": 1202435317,
"href": "/sequence-files/IGVFFI2295NKXK/@@download/IGVFFI2295NKXK.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/26be09e9-6ef4-41cc-a43d-70c06c81ecd9/IGVFFI2295NKXK.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L002_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8268RJMJ/",
"accession": "IGVFFI8268RJMJ",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS2_i2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:42:53.408336+00:00",
"file_format": "fastq",
"file_size": 149919940,
"href": "/sequence-files/IGVFFI8268RJMJ/@@download/IGVFFI8268RJMJ.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/1a72b570-5e17-4b2f-bc6f-7d693f51440a/IGVFFI8268RJMJ.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L002_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9972WCVC/",
"accession": "IGVFFI9972WCVC",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS3_i1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:43:21.915022+00:00",
"file_format": "fastq",
"file_size": 121462767,
"href": "/sequence-files/IGVFFI9972WCVC/@@download/IGVFFI9972WCVC.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/c181e5ad-a5d9-4e52-aebc-3567bec34031/IGVFFI9972WCVC.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L003_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5429FBRE/",
"accession": "IGVFFI5429FBRE",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS3_i2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:43:28.418672+00:00",
"file_format": "fastq",
"file_size": 105109029,
"href": "/sequence-files/IGVFFI5429FBRE/@@download/IGVFFI5429FBRE.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/77045c06-4dbe-44b4-9bd6-d89ccb72ac05/IGVFFI5429FBRE.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L003_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9084LMNS/",
"accession": "IGVFFI9084LMNS",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS1_i1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:42:10.985129+00:00",
"file_format": "fastq",
"file_size": 180962081,
"href": "/sequence-files/IGVFFI9084LMNS/@@download/IGVFFI9084LMNS.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/a74a71f3-3943-47a7-9f0e-6abb7ced812e/IGVFFI9084LMNS.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L001_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5210WSAO/",
"accession": "IGVFFI5210WSAO",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS1_i2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:42:16.986927+00:00",
"file_format": "fastq",
"file_size": 141738408,
"href": "/sequence-files/IGVFFI5210WSAO/@@download/IGVFFI5210WSAO.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/91cee222-edf1-43a5-8943-fa0b641f0b18/IGVFFI5210WSAO.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L001_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4990FLLB/",
"accession": "IGVFFI4990FLLB",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS1_r2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:42:01.570224+00:00",
"file_format": "fastq",
"file_size": 1124739102,
"href": "/sequence-files/IGVFFI4990FLLB/@@download/IGVFFI4990FLLB.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/d5b2143f-1b94-4b4d-ab67-8b9865c078ea/IGVFFI4990FLLB.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L001_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0168UXWB/",
"accession": "IGVFFI0168UXWB",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS3_r1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:43:00.536569+00:00",
"file_format": "fastq",
"file_size": 377894172,
"href": "/sequence-files/IGVFFI0168UXWB/@@download/IGVFFI0168UXWB.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/9d8a62e4-3e3c-4a0c-805e-1a58676df5f2/IGVFFI0168UXWB.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L003_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8666ENEF/",
"accession": "IGVFFI8666ENEF",
"aliases": [
"ansuman-satpathy:igvf_exp9_multi_10x2_NGS2_i1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2024-07-23T21:42:44.726076+00:00",
"file_format": "fastq",
"file_size": 191628221,
"href": "/sequence-files/IGVFFI8666ENEF/@@download/IGVFFI8666ENEF.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2024/07/23/31be5fb2-bcb5-4e45-a5a0-a1a22574b86e/IGVFFI8666ENEF.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/MULTI/FASTQ/MULTI_2_CMAS_IGVF9_R_S3_L002_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI4524JQYY/",
"accession": "IGVFFI4524JQYY",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp9_multi_10x2_NGS2"
],
"content_type": "seqspec",
"creation_timestamp": "2024-09-18T02:44:33.368573+00:00",
"file_format": "yaml",
"file_size": 1334,
"href": "/configuration-files/IGVFFI4524JQYY/@@download/IGVFFI4524JQYY.yaml.gz",
"s3_uri": "s3://igvf-files/2024/09/18/53dfe375-8f6e-4f4c-a180-7b452769de83/IGVFFI4524JQYY.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec/igvf_exp9_multi_10x2_NGS2_multi_seqspec.yaml.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI6753REDM/",
"accession": "IGVFFI6753REDM",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp9_multi_10x2_NGS1"
],
"content_type": "seqspec",
"creation_timestamp": "2024-09-18T02:44:29.909376+00:00",
"file_format": "yaml",
"file_size": 1337,
"href": "/configuration-files/IGVFFI6753REDM/@@download/IGVFFI6753REDM.yaml.gz",
"s3_uri": "s3://igvf-files/2024/09/18/c451413b-a7f1-485e-8493-9b81dfe767d0/IGVFFI6753REDM.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec/igvf_exp9_multi_10x2_NGS1_multi_seqspec.yaml.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI4853VRDQ/",
"accession": "IGVFFI4853VRDQ",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp9_multi_10x2_NGS3"
],
"content_type": "seqspec",
"creation_timestamp": "2024-09-18T02:44:36.838581+00:00",
"file_format": "yaml",
"file_size": 1335,
"href": "/configuration-files/IGVFFI4853VRDQ/@@download/IGVFFI4853VRDQ.yaml.gz",
"s3_uri": "s3://igvf-files/2024/09/18/20c1ed28-9854-4399-b5ad-5e20e7030114/IGVFFI4853VRDQ.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec/igvf_exp9_multi_10x2_NGS3_multi_seqspec.yaml.gz",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS6435ALNY/"
],
"lab": {
"@id": "/labs/ansuman-satpathy/",
"title": "Ansuman Satpathy, Stanford"
},
"measurement_sets": [
{
"@id": "/measurement-sets/IGVFDS4370KUWU/",
"accession": "IGVFDS4370KUWU",
"aliases": [
"ansuman-satpathy:snRNA-seq_igvf9_10x2"
],
"preferred_assay_title": "10x multiome with MULTI-seq",
"status": "released"
},
{
"@id": "/measurement-sets/IGVFDS2108XESQ/",
"accession": "IGVFDS2108XESQ",
"aliases": [
"ansuman-satpathy:snATAC-seq_igvf9_10x2"
],
"preferred_assay_title": "10x multiome with MULTI-seq",
"status": "released"
}
],
"notes": "File_set_type enum oligo-conjugated lipids has been renamed to be lipid-conjugated oligo sequencing.",
"release_timestamp": "2025-03-22T00:38:15.519916+00:00",
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM2512OHNK/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM2512OHNK",
"aliases": [
"ansuman-satpathy:multiplexed_sample_igvf9_10x2"
],
"classifications": [
"differentiated cell specimen",
"multiplexed sample"
],
"disease_terms": [],
"institutional_certificates": [
{
"@id": "/institutional-certificates/460c2060-3b32-43c1-ab4b-b2ef0fbeb2b2/",
"certificate_identifier": "IP115-22",
"controlled_access": true,
"data_use_limitation": "GRU",
"status": "released"
}
],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/CL_0000236/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "B cell",
"term_name": "B cell"
}
],
"status": "released",
"summary": "multiplexed sample: Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 1 day; Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 5 days; ... and 5 more samples",
"taxa": "Homo sapiens",
"treatments": []
}
],
"schema_version": "12",
"status": "released",
"submitted_by": {
"@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
"title": "Christopher Mcginnis"
},
"submitted_files_timestamp": "2024-07-23T21:41:52.589389+00:00",
"summary": "lipid-conjugated oligo sequencing for single-nucleus RNA sequencing assay (10x multiome with MULTI-seq), single-nucleus ATAC-seq (10x multiome with MULTI-seq)",
"uuid": "7672aa54-6f72-408f-831e-874a68710936"
}