{
"@context": "/terms/",
"@id": "/auxiliary-sets/IGVFDS7632NJZU/",
"@type": [
"AuxiliarySet",
"FileSet",
"Item"
],
"accession": "IGVFDS7632NJZU",
"aliases": [
"ansuman-satpathy:multiseq_igvf17_10x3"
],
"audit": {},
"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"
},
"barcode_map": "/tabular-files/IGVFFI8290RCZJ/",
"control_for": [],
"creation_timestamp": "2025-01-27T22:55:20.060941+00:00",
"donors": [
{
"@id": "/human-donors/IGVFDO5261UCLF/",
"accession": "IGVFDO5261UCLF",
"aliases": [
"igvf:donor_of_RUES2",
"igvf:donor_RUES2"
],
"sex": "female",
"status": "released",
"taxa": "Homo sapiens"
}
],
"file_set_type": "lipid-conjugated oligo sequencing",
"files": [
{
"@id": "/sequence-files/IGVFFI1189PCMA/",
"accession": "IGVFFI1189PCMA",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS4_i2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:19:42.737744+00:00",
"file_format": "fastq",
"file_size": 48489649,
"href": "/sequence-files/IGVFFI1189PCMA/@@download/IGVFFI1189PCMA.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/f49582b6-60a0-4c7f-b481-24d5457db0a6/IGVFFI1189PCMA.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L008_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1037KXKV/",
"accession": "IGVFFI1037KXKV",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS4_r1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:19:49.130549+00:00",
"file_format": "fastq",
"file_size": 163338850,
"href": "/sequence-files/IGVFFI1037KXKV/@@download/IGVFFI1037KXKV.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/914561ec-0217-4be3-85ed-10ed241352dd/IGVFFI1037KXKV.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L008_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7267SMPA/",
"accession": "IGVFFI7267SMPA",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS1_r2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:18:29.703107+00:00",
"file_format": "fastq",
"file_size": 372825261,
"href": "/sequence-files/IGVFFI7267SMPA/@@download/IGVFFI7267SMPA.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/53da7098-d014-42ea-a584-161898e7d8a9/IGVFFI7267SMPA.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L005_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2048VLVQ/",
"accession": "IGVFFI2048VLVQ",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS2_i2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:18:43.724036+00:00",
"file_format": "fastq",
"file_size": 49330567,
"href": "/sequence-files/IGVFFI2048VLVQ/@@download/IGVFFI2048VLVQ.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/a9c6f63f-8f17-469a-97fa-db0351dcb05c/IGVFFI2048VLVQ.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L006_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1501KDHP/",
"accession": "IGVFFI1501KDHP",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS2_r2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:18:57.969585+00:00",
"file_format": "fastq",
"file_size": 375952865,
"href": "/sequence-files/IGVFFI1501KDHP/@@download/IGVFFI1501KDHP.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/2f135097-bb86-4f56-8750-703f1f1073d8/IGVFFI1501KDHP.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L006_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8348XCMK/",
"accession": "IGVFFI8348XCMK",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS3_r1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:19:18.865823+00:00",
"file_format": "fastq",
"file_size": 162330294,
"href": "/sequence-files/IGVFFI8348XCMK/@@download/IGVFFI8348XCMK.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/48d1d99c-7082-4e4f-a676-13b0f951b115/IGVFFI8348XCMK.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L007_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2405TTKO/",
"accession": "IGVFFI2405TTKO",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS2_r1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:18:49.494873+00:00",
"file_format": "fastq",
"file_size": 165402039,
"href": "/sequence-files/IGVFFI2405TTKO/@@download/IGVFFI2405TTKO.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/e205bf6e-9931-49e3-a338-c779caf38e36/IGVFFI2405TTKO.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L006_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2541DVGK/",
"accession": "IGVFFI2541DVGK",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS1_i1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:18:09.789668+00:00",
"file_format": "fastq",
"file_size": 62455373,
"href": "/sequence-files/IGVFFI2541DVGK/@@download/IGVFFI2541DVGK.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/27bb8a9e-6889-4c47-9e26-f86131f049d0/IGVFFI2541DVGK.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L005_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0249UVTL/",
"accession": "IGVFFI0249UVTL",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS1_r1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:18:21.754692+00:00",
"file_format": "fastq",
"file_size": 163864268,
"href": "/sequence-files/IGVFFI0249UVTL/@@download/IGVFFI0249UVTL.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/58a69d38-d005-4706-83a2-fb3dd934fcf0/IGVFFI0249UVTL.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L005_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5273UNHO/",
"accession": "IGVFFI5273UNHO",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS3_i1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:19:06.913084+00:00",
"file_format": "fastq",
"file_size": 61945612,
"href": "/sequence-files/IGVFFI5273UNHO/@@download/IGVFFI5273UNHO.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/57be28e1-d1fb-453d-b751-84007e1a438e/IGVFFI5273UNHO.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L007_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2348WKKG/",
"accession": "IGVFFI2348WKKG",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS4_i1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:19:36.510891+00:00",
"file_format": "fastq",
"file_size": 62552828,
"href": "/sequence-files/IGVFFI2348WKKG/@@download/IGVFFI2348WKKG.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/37bbdf95-b062-4a92-a6d2-8b870640e1f1/IGVFFI2348WKKG.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L008_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3519WRHY/",
"accession": "IGVFFI3519WRHY",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS3_r2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:19:27.426602+00:00",
"file_format": "fastq",
"file_size": 369469952,
"href": "/sequence-files/IGVFFI3519WRHY/@@download/IGVFFI3519WRHY.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/37546cdf-9ff3-44a3-8614-f0ec8b945797/IGVFFI3519WRHY.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L007_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3633NOEG/",
"accession": "IGVFFI3633NOEG",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS1_i2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:18:16.618742+00:00",
"file_format": "fastq",
"file_size": 48590421,
"href": "/sequence-files/IGVFFI3633NOEG/@@download/IGVFFI3633NOEG.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/be4e23fb-bb96-46ef-b50d-003d42f392d7/IGVFFI3633NOEG.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L005_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3961CXUE/",
"accession": "IGVFFI3961CXUE",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS3_i2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:19:12.918437+00:00",
"file_format": "fastq",
"file_size": 48402148,
"href": "/sequence-files/IGVFFI3961CXUE/@@download/IGVFFI3961CXUE.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/1d5a2b27-e31f-4b57-91f1-02bde12de7f2/IGVFFI3961CXUE.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L007_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9313JLBH/",
"accession": "IGVFFI9313JLBH",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS2_i1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:18:37.818753+00:00",
"file_format": "fastq",
"file_size": 63091200,
"href": "/sequence-files/IGVFFI9313JLBH/@@download/IGVFFI9313JLBH.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/0a78df79-6f44-47be-a8bd-122724e466f2/IGVFFI9313JLBH.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L006_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0907BIYM/",
"accession": "IGVFFI0907BIYM",
"aliases": [
"ansuman-satpathy:igvf_exp17_multi_10x3_NGS4_r2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2025-01-28T04:19:57.730274+00:00",
"file_format": "fastq",
"file_size": 368878426,
"href": "/sequence-files/IGVFFI0907BIYM/@@download/IGVFFI0907BIYM.fastq.gz",
"s3_uri": "s3://igvf-files/2025/01/28/6d2a95b1-4bf2-4638-87b4-43a22b1df20c/IGVFFI0907BIYM.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0022840/",
"status": "released",
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/MULTI/CMAS19_MULTI3_S172_L008_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI0730XVQN/",
"accession": "IGVFFI0730XVQN",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp17_multi_10x3_NGS3"
],
"content_type": "seqspec",
"creation_timestamp": "2025-02-26T01:41:32.176813+00:00",
"file_format": "yaml",
"file_size": 1337,
"href": "/configuration-files/IGVFFI0730XVQN/@@download/IGVFFI0730XVQN.yaml.gz",
"s3_uri": "s3://igvf-files/2025/02/26/d4614f58-2fbc-402b-ad30-c42bb0b62996/IGVFFI0730XVQN.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec_new/igvf_exp17_multi_10x3_NGS3_multi_seqspec.yaml.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI2983LPJD/",
"accession": "IGVFFI2983LPJD",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp17_multi_10x3_NGS2"
],
"content_type": "seqspec",
"creation_timestamp": "2025-02-26T01:41:26.703970+00:00",
"file_format": "yaml",
"file_size": 1338,
"href": "/configuration-files/IGVFFI2983LPJD/@@download/IGVFFI2983LPJD.yaml.gz",
"s3_uri": "s3://igvf-files/2025/02/26/4d77cd03-2d0d-49e1-9a86-c89fb23e5959/IGVFFI2983LPJD.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec_new/igvf_exp17_multi_10x3_NGS2_multi_seqspec.yaml.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI0697KHWF/",
"accession": "IGVFFI0697KHWF",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp17_multi_10x3_NGS4"
],
"content_type": "seqspec",
"creation_timestamp": "2025-02-26T01:41:36.869562+00:00",
"file_format": "yaml",
"file_size": 1339,
"href": "/configuration-files/IGVFFI0697KHWF/@@download/IGVFFI0697KHWF.yaml.gz",
"s3_uri": "s3://igvf-files/2025/02/26/1c687dc6-cf97-46b0-8100-0a8fbd2dd502/IGVFFI0697KHWF.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec_new/igvf_exp17_multi_10x3_NGS4_multi_seqspec.yaml.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI3059MMOK/",
"accession": "IGVFFI3059MMOK",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp17_multi_10x3_NGS1"
],
"content_type": "seqspec",
"creation_timestamp": "2025-02-26T01:41:21.689232+00:00",
"file_format": "yaml",
"file_size": 1334,
"href": "/configuration-files/IGVFFI3059MMOK/@@download/IGVFFI3059MMOK.yaml.gz",
"s3_uri": "s3://igvf-files/2025/02/26/db9bfaf6-ac5a-4c2a-be16-b725e870365f/IGVFFI3059MMOK.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec_new/igvf_exp17_multi_10x3_NGS1_multi_seqspec.yaml.gz",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS0398ALPE/"
],
"lab": {
"@id": "/labs/ansuman-satpathy/",
"title": "Ansuman Satpathy, Stanford"
},
"measurement_sets": [
{
"@id": "/measurement-sets/IGVFDS1850HDEG/",
"accession": "IGVFDS1850HDEG",
"aliases": [
"ansuman-satpathy:snATAC-seq_igvf17_10x3"
],
"preferred_assay_title": "10x multiome with MULTI-seq",
"status": "released"
},
{
"@id": "/measurement-sets/IGVFDS2170OFES/",
"accession": "IGVFDS2170OFES",
"aliases": [
"ansuman-satpathy:snRNA-seq_igvf17_10x3"
],
"preferred_assay_title": "10x multiome with MULTI-seq",
"status": "released"
}
],
"release_timestamp": "2025-03-07T01:16:54.589041+00:00",
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM6345RLEH/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM6345RLEH",
"aliases": [
"ansuman-satpathy:multiplexed_sample_igvf17_10x3"
],
"cellular_sub_pool": "3",
"classifications": [
"differentiated cell specimen",
"multiplexed sample"
],
"disease_terms": [],
"institutional_certificates": [],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009320/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "RUES2",
"term_name": "RUES2"
}
],
"status": "released",
"summary": "multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 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": "2025-01-28T04:18:09.789668+00:00",
"summary": "lipid-conjugated oligo sequencing for single-nucleus ATAC-seq (10x multiome with MULTI-seq), single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)",
"uuid": "88178262-77c9-47b8-9688-9d7ad5752b3f"
}