{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS1824DNGD/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS1824DNGD",
"aliases": [
"ansuman-satpathy:snATAC-seq_igvf11_10x4"
],
"assay_term": {
"@id": "/assay-terms/OBI_0002762/",
"assay_slims": [
"chromatin accessibility"
],
"status": "released",
"term_name": "single-nucleus ATAC-seq"
},
"audit": {
"INTERNAL_ACTION": [
{
"category": "missing publication",
"detail": "Multiplexed sample [IGVFSM8200CKYL](/multiplexed-samples/IGVFSM8200CKYL/) has no `publications`. Released and archived samples are expected to be associated with a publication.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_sample_missing_publication",
"path": "/multiplexed-samples/IGVFSM8200CKYL/"
},
{
"category": "missing publication",
"detail": "Measurement set [IGVFDS1824DNGD](/measurement-sets/IGVFDS1824DNGD/) has no `publications`. Released and archived file sets are expected to be associated with a publication.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_file_set_missing_publication",
"path": "/measurement-sets/IGVFDS1824DNGD/"
},
{
"category": "missing publication",
"detail": "Auxiliary set [IGVFDS6138PRFG](/auxiliary-sets/IGVFDS6138PRFG/) has no `publications`. Released and archived file sets are expected to be associated with a publication.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_file_set_missing_publication",
"path": "/auxiliary-sets/IGVFDS6138PRFG/"
}
]
},
"auxiliary_sets": [
{
"@id": "/auxiliary-sets/IGVFDS6138PRFG/",
"accession": "IGVFDS6138PRFG",
"aliases": [
"ansuman-satpathy:multiseq_igvf11_10x4"
],
"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": [],
"controlled_access": false,
"creation_timestamp": "2024-07-22T00:32:08.513897+00:00",
"data_use_limitation_summaries": [
"No limitations"
],
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"aliases": [
"igvf:donor_of_WTC11"
],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO7411YYYE/",
"accession": "IGVFDO7411YYYE",
"aliases": [
"igvf:donor_of_h7"
],
"sex": "female",
"status": "released",
"taxa": "Homo sapiens"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
"files": [
{
"@id": "/sequence-files/IGVFFI9915FQPN/",
"accession": "IGVFFI9915FQPN",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS3_i1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T01:00:01.779386+00:00",
"file_format": "fastq",
"file_size": 1613227277,
"href": "/sequence-files/IGVFFI9915FQPN/@@download/IGVFFI9915FQPN.fastq.gz",
"md5sum": "a2605a5426dd7bc851cef6dca33fd4d2",
"s3_uri": "s3://igvf-files/2024/07/23/86ca85fb-cbc9-41a7-8a26-a78e3c84e52e/IGVFFI9915FQPN.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S66_L007_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1639RTNK/",
"accession": "IGVFFI1639RTNK",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS3_r3"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T01:01:40.186833+00:00",
"file_format": "fastq",
"file_size": 7183271689,
"href": "/sequence-files/IGVFFI1639RTNK/@@download/IGVFFI1639RTNK.fastq.gz",
"md5sum": "e5c759142c570904b7d12a2df26c564f",
"s3_uri": "s3://igvf-files/2024/07/23/a9799d05-9ff2-48de-9241-bd65202d3a16/IGVFFI1639RTNK.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S66_L007_R3_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2350QBEI/",
"accession": "IGVFFI2350QBEI",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS1_r2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T00:57:34.329510+00:00",
"file_format": "fastq",
"file_size": 2696388379,
"href": "/sequence-files/IGVFFI2350QBEI/@@download/IGVFFI2350QBEI.fastq.gz",
"md5sum": "bc9775c746941a760da73a6304c1b0bd",
"s3_uri": "s3://igvf-files/2024/07/23/aedc61a8-bb24-40f7-b207-079eca7894ea/IGVFFI2350QBEI.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S4_L001_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6345HQKI/",
"accession": "IGVFFI6345HQKI",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS1_i1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T00:56:47.988586+00:00",
"file_format": "fastq",
"file_size": 1176913287,
"href": "/sequence-files/IGVFFI6345HQKI/@@download/IGVFFI6345HQKI.fastq.gz",
"md5sum": "1f17b83b0c293ad74507cf0dde38a286",
"s3_uri": "s3://igvf-files/2024/07/23/e719965d-7e00-4f0f-b99e-f2ba2fbb04a4/IGVFFI6345HQKI.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S4_L001_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5928GUSU/",
"accession": "IGVFFI5928GUSU",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS3_r1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T01:00:25.178504+00:00",
"file_format": "fastq",
"file_size": 7243469993,
"href": "/sequence-files/IGVFFI5928GUSU/@@download/IGVFFI5928GUSU.fastq.gz",
"md5sum": "88b62b1d492365096f3fe4c4094b63e0",
"s3_uri": "s3://igvf-files/2024/07/23/4d763bbf-1b71-4c85-8a4f-734f2cbfb124/IGVFFI5928GUSU.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S66_L007_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7980SPCZ/",
"accession": "IGVFFI7980SPCZ",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS2_i1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T00:58:21.701558+00:00",
"file_format": "fastq",
"file_size": 1199802588,
"href": "/sequence-files/IGVFFI7980SPCZ/@@download/IGVFFI7980SPCZ.fastq.gz",
"md5sum": "2007e9bb01b85180219fdfb38b319f57",
"s3_uri": "s3://igvf-files/2024/07/23/2f88e947-9cad-499c-90e4-93c7aae37e66/IGVFFI7980SPCZ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S4_L002_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6518WZLR/",
"accession": "IGVFFI6518WZLR",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS1_r1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T00:57:07.134640+00:00",
"file_format": "fastq",
"file_size": 4960657092,
"href": "/sequence-files/IGVFFI6518WZLR/@@download/IGVFFI6518WZLR.fastq.gz",
"md5sum": "0a4d87a0edf52511e72948c11de9df8b",
"s3_uri": "s3://igvf-files/2024/07/23/8f2487d2-37b0-4653-ae9a-3825a5d9c2c3/IGVFFI6518WZLR.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S4_L001_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1725EZEV/",
"accession": "IGVFFI1725EZEV",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS3_r2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T01:01:03.087081+00:00",
"file_format": "fastq",
"file_size": 3954509278,
"href": "/sequence-files/IGVFFI1725EZEV/@@download/IGVFFI1725EZEV.fastq.gz",
"md5sum": "66e9e8cac6c919a24d280501e2c53711",
"s3_uri": "s3://igvf-files/2024/07/23/163bf646-8573-4efb-b85c-e5b4343f6f95/IGVFFI1725EZEV.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S66_L007_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5757ZDOL/",
"accession": "IGVFFI5757ZDOL",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS4_i1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T01:02:18.190087+00:00",
"file_format": "fastq",
"file_size": 1631970296,
"href": "/sequence-files/IGVFFI5757ZDOL/@@download/IGVFFI5757ZDOL.fastq.gz",
"md5sum": "46419acdfa302d5227d501668263a7b8",
"s3_uri": "s3://igvf-files/2024/07/23/5a0c0619-d4f4-43f6-9f1d-68514e3338f3/IGVFFI5757ZDOL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S66_L008_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2600SVRW/",
"accession": "IGVFFI2600SVRW",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS2_r1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T00:58:41.064427+00:00",
"file_format": "fastq",
"file_size": 5052761516,
"href": "/sequence-files/IGVFFI2600SVRW/@@download/IGVFFI2600SVRW.fastq.gz",
"md5sum": "5ceae26b7553ca1a389ef31ffdb904eb",
"s3_uri": "s3://igvf-files/2024/07/23/89f24f02-6636-4fca-97c9-dbcb6d31fa6c/IGVFFI2600SVRW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S4_L002_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1167LMYO/",
"accession": "IGVFFI1167LMYO",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS1_r3"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T00:57:58.167946+00:00",
"file_format": "fastq",
"file_size": 4922922820,
"href": "/sequence-files/IGVFFI1167LMYO/@@download/IGVFFI1167LMYO.fastq.gz",
"md5sum": "0a8ee69e4918bb52664bbf4a3842c405",
"s3_uri": "s3://igvf-files/2024/07/23/bd2ad77f-bf82-4988-ad79-b809f03fbb75/IGVFFI1167LMYO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S4_L001_R3_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7782QPFL/",
"accession": "IGVFFI7782QPFL",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS2_r2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T00:59:10.062308+00:00",
"file_format": "fastq",
"file_size": 2747200784,
"href": "/sequence-files/IGVFFI7782QPFL/@@download/IGVFFI7782QPFL.fastq.gz",
"md5sum": "eb6e51e0ab2f8fe457a4b8b3d7a478d7",
"s3_uri": "s3://igvf-files/2024/07/23/1f76230a-9b8a-4dd0-bcd0-bd0af93b165c/IGVFFI7782QPFL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S4_L002_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2420PDXE/",
"accession": "IGVFFI2420PDXE",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS2_r3"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T00:59:34.501709+00:00",
"file_format": "fastq",
"file_size": 5003567589,
"href": "/sequence-files/IGVFFI2420PDXE/@@download/IGVFFI2420PDXE.fastq.gz",
"md5sum": "5c362564d79b403e9cc2026e5a16970e",
"s3_uri": "s3://igvf-files/2024/07/23/a3f60d84-622d-484a-bcad-04b936175008/IGVFFI2420PDXE.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S4_L002_R3_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8516KCXK/",
"accession": "IGVFFI8516KCXK",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS4_r1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T01:02:42.565343+00:00",
"file_format": "fastq",
"file_size": 7407494592,
"href": "/sequence-files/IGVFFI8516KCXK/@@download/IGVFFI8516KCXK.fastq.gz",
"md5sum": "a7e89dd123f1840caa9fa933fd1804c6",
"s3_uri": "s3://igvf-files/2024/07/23/762a69fa-6bc4-4b3e-8577-96743a09476a/IGVFFI8516KCXK.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S66_L008_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4911YVMQ/",
"accession": "IGVFFI4911YVMQ",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS4_r2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T01:03:20.786324+00:00",
"file_format": "fastq",
"file_size": 4049786361,
"href": "/sequence-files/IGVFFI4911YVMQ/@@download/IGVFFI4911YVMQ.fastq.gz",
"md5sum": "557d7eac6ae8b9137f65c48ade665317",
"s3_uri": "s3://igvf-files/2024/07/23/b58fab00-1746-4e52-aa50-cb62d633f072/IGVFFI4911YVMQ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S66_L008_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1664PYFR/",
"accession": "IGVFFI1664PYFR",
"aliases": [
"ansuman-satpathy:igvf_exp11_atac_10x4_NGS4_r3"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-07-23T01:03:54.883685+00:00",
"file_format": "fastq",
"file_size": 7347877309,
"href": "/sequence-files/IGVFFI1664PYFR/@@download/IGVFFI1664PYFR.fastq.gz",
"md5sum": "ce4bb594896c32ed20877c37d6719343",
"s3_uri": "s3://igvf-files/2024/07/23/deb42c46-3b65-4329-8723-452c90b0245f/IGVFFI1664PYFR.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"status": "released",
"submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/ATAC/FASTQ/ATAC_4_S66_L008_R3_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI2972MQBW/",
"accession": "IGVFFI2972MQBW",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp11_atac_10x4_NGS1"
],
"content_type": "seqspec",
"creation_timestamp": "2024-09-18T02:23:03.481215+00:00",
"file_format": "yaml",
"file_size": 1377,
"href": "/configuration-files/IGVFFI2972MQBW/@@download/IGVFFI2972MQBW.yaml.gz",
"md5sum": "c55c08169113a60ca2187ffa60d54d03",
"s3_uri": "s3://igvf-files/2024/09/18/c16cd2af-daec-4d5c-afa7-7efa1d028175/IGVFFI2972MQBW.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec/igvf_exp11_atac_10x4_NGS1_atac_seqspec.yaml.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI4928KJRE/",
"accession": "IGVFFI4928KJRE",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp11_atac_10x4_NGS2"
],
"content_type": "seqspec",
"creation_timestamp": "2024-09-18T02:23:07.100392+00:00",
"file_format": "yaml",
"file_size": 1372,
"href": "/configuration-files/IGVFFI4928KJRE/@@download/IGVFFI4928KJRE.yaml.gz",
"md5sum": "2fbd3b398407b4325292f2440553bcf5",
"s3_uri": "s3://igvf-files/2024/09/18/5c0750d9-3732-4d01-bfa9-d20cb450f890/IGVFFI4928KJRE.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec/igvf_exp11_atac_10x4_NGS2_atac_seqspec.yaml.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI2832ITUD/",
"accession": "IGVFFI2832ITUD",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp11_atac_10x4_NGS3"
],
"content_type": "seqspec",
"creation_timestamp": "2024-09-18T02:23:10.556757+00:00",
"file_format": "yaml",
"file_size": 1379,
"href": "/configuration-files/IGVFFI2832ITUD/@@download/IGVFFI2832ITUD.yaml.gz",
"md5sum": "aa69790a0b864bd042878d930ba3825f",
"s3_uri": "s3://igvf-files/2024/09/18/a0ffa14b-2182-4444-8220-6d2632f9c4c0/IGVFFI2832ITUD.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec/igvf_exp11_atac_10x4_NGS3_atac_seqspec.yaml.gz",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI4811ZSSF/",
"accession": "IGVFFI4811ZSSF",
"aliases": [
"ansuman-satpathy:seqspec_igvf_exp11_atac_10x4_NGS4"
],
"content_type": "seqspec",
"creation_timestamp": "2024-09-18T02:23:14.135775+00:00",
"file_format": "yaml",
"file_size": 1378,
"href": "/configuration-files/IGVFFI4811ZSSF/@@download/IGVFFI4811ZSSF.yaml.gz",
"md5sum": "02a75ce007e45bba83b3130f948c31ae",
"s3_uri": "s3://igvf-files/2024/09/18/d4332521-4628-4e19-89af-e8145c6f5cb0/IGVFFI4811ZSSF.yaml.gz",
"status": "released",
"submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec/igvf_exp11_atac_10x4_NGS4_atac_seqspec.yaml.gz",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS6121CBDQ/"
],
"lab": {
"@id": "/labs/ansuman-satpathy/",
"title": "Ansuman Satpathy, Stanford"
},
"multiome_size": 2,
"onlist_files": [
"/tabular-files/IGVFFI7587TJLC/"
],
"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/IGVFDS6943MGVC/",
"accession": "IGVFDS6943MGVC",
"status": "released"
}
],
"release_timestamp": "2025-03-07T01:14:21.763596+00:00",
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM8200CKYL/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM8200CKYL",
"aliases": [
"ansuman-satpathy:multiplexed_sample_igvf11_10x4"
],
"classifications": [
"differentiated cell specimen",
"multiplexed sample"
],
"disease_terms": [],
"institutional_certificates": [
{
"@id": "/institutional-certificates/e5598331-9e7c-4bd5-8e7b-64d5a4529006/",
"certificate_identifier": "IP115-21",
"controlled_access": false,
"status": "released"
},
{
"@id": "/institutional-certificates/f37dfa73-f4f1-4bfe-a312-9eade62d5988/",
"certificate_identifier": "IP115-15",
"controlled_access": false,
"status": "released"
}
],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0005904/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"aliases": [
"igvf:H7-hESC"
],
"status": "released",
"summary": "H7-hESC",
"term_name": "H7-hESC"
},
{
"@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: Homo sapiens (female) H7-hESC differentiated cell specimen; Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 6 days; ... and 10 more samples",
"taxa": "Homo sapiens",
"treatments": []
}
],
"schema_version": "26",
"status": "released",
"submitted_by": {
"@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
"title": "Christopher Mcginnis"
},
"submitted_files_timestamp": "2024-07-23T00:19:19.937344+00:00",
"summary": "single-nucleus ATAC-seq (10x multiome with MULTI-seq)",
"uuid": "21b00621-fccf-4842-a37c-89bf660865bf"
}