{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS0559WMGB/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS0559WMGB",
"aliases": [
"maya-kasowski:Parse_P2_scRNA"
],
"assay_term": {
"@id": "/assay-terms/OBI_0002631/",
"assay_slims": [
"gene expression"
],
"status": "released",
"term_name": "single-cell RNA sequencing assay"
},
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Preview multiplexed sample [IGVFSM4252CQLW](/multiplexed-samples/IGVFSM4252CQLW/) has in progress subobject tabular file [IGVFFI0307NJHR](/tabular-files/IGVFFI0307NJHR/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/multiplexed-samples/IGVFSM4252CQLW/"
}
],
"NOT_COMPLIANT": [
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS0559WMGB](/measurement-sets/IGVFDS0559WMGB/) has sequence file(s): [IGVFFI4486CTSO](/sequence-files/IGVFFI4486CTSO/), [IGVFFI1272GYFL](/sequence-files/IGVFFI1272GYFL/), [IGVFFI7939FSNG](/sequence-files/IGVFFI7939FSNG/), [IGVFFI2261JRHK](/sequence-files/IGVFFI2261JRHK/), [IGVFFI9902EFBH](/sequence-files/IGVFFI9902EFBH/), [IGVFFI1849DEZW](/sequence-files/IGVFFI1849DEZW/), [IGVFFI0121SSXY](/sequence-files/IGVFFI0121SSXY/), [IGVFFI3899WVFZ](/sequence-files/IGVFFI3899WVFZ/), [IGVFFI9068DWZL](/sequence-files/IGVFFI9068DWZL/), [IGVFFI5546AHAO](/sequence-files/IGVFFI5546AHAO/), [IGVFFI3877UVLK](/sequence-files/IGVFFI3877UVLK/), [IGVFFI8494SXMY](/sequence-files/IGVFFI8494SXMY/), [IGVFFI0547JQCO](/sequence-files/IGVFFI0547JQCO/), [IGVFFI6043PBCM](/sequence-files/IGVFFI6043PBCM/), [IGVFFI1300PPWH](/sequence-files/IGVFFI1300PPWH/), [IGVFFI2619KVNC](/sequence-files/IGVFFI2619KVNC/), [IGVFFI2855EGOA](/sequence-files/IGVFFI2855EGOA/), [IGVFFI2879NWVB](/sequence-files/IGVFFI2879NWVB/), [IGVFFI5614IBJD](/sequence-files/IGVFFI5614IBJD/), [IGVFFI5556FJGV](/sequence-files/IGVFFI5556FJGV/), [IGVFFI2369VLZV](/sequence-files/IGVFFI2369VLZV/), [IGVFFI0066OTMI](/sequence-files/IGVFFI0066OTMI/), [IGVFFI7025ZNTK](/sequence-files/IGVFFI7025ZNTK/), [IGVFFI0085GQEP](/sequence-files/IGVFFI0085GQEP/), [IGVFFI4398LFDE](/sequence-files/IGVFFI4398LFDE/), [IGVFFI7668ZAXW](/sequence-files/IGVFFI7668ZAXW/), [IGVFFI4667BLBV](/sequence-files/IGVFFI4667BLBV/), [IGVFFI2909PLHT](/sequence-files/IGVFFI2909PLHT/), [IGVFFI4143QKEY](/sequence-files/IGVFFI4143QKEY/), [IGVFFI3722EISV](/sequence-files/IGVFFI3722EISV/), [IGVFFI8637PGIE](/sequence-files/IGVFFI8637PGIE/), [IGVFFI0016JZYO](/sequence-files/IGVFFI0016JZYO/) which do not have any `seqspecs`. Sequence files in a file set associated with single cell data are expected to link to a sequence specification file.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_missing_seqspec",
"path": "/measurement-sets/IGVFDS0559WMGB/"
},
{
"category": "missing strand specificity",
"detail": "Measurement set [IGVFDS0559WMGB](/measurement-sets/IGVFDS0559WMGB/) is missing required `strand_specificity`. Single-cell assays are expected to specify strand specificity.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_missing_strand_specificity",
"path": "/measurement-sets/IGVFDS0559WMGB/"
},
{
"category": "missing barcode onlist",
"detail": "Measurement set [IGVFDS0559WMGB](/measurement-sets/IGVFDS0559WMGB/) has an `assay_term` of single-cell RNA sequencing assay but no `onlist_files` nor `onlist_methods`. Measurement sets to be processed via the single cell uniform pipeline are expected to have onlist files and onlist methods indicated.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_onlist",
"path": "/measurement-sets/IGVFDS0559WMGB/"
}
],
"WARNING": [
{
"category": "missing analysis",
"detail": "Measurement set [IGVFDS0559WMGB](/measurement-sets/IGVFDS0559WMGB/) is a raw data set with files, but is not listed in any `input_file_sets` for any analysis sets. Raw data sets with files are expected to be associated with at least one analysis set.",
"level": 40,
"level_name": "WARNING",
"name": "audit_input_for",
"path": "/measurement-sets/IGVFDS0559WMGB/"
}
]
},
"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": "2025-03-09T08:53:35.802070+00:00",
"data_use_limitation_summaries": [
"GRU"
],
"donors": [
{
"@id": "/human-donors/IGVFDO3010QRAU/",
"accession": "IGVFDO3010QRAU",
"aliases": [
"maya-kasowski:donor_4111"
],
"sex": "female",
"status": "released",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO3765EKDF/",
"accession": "IGVFDO3765EKDF",
"aliases": [
"maya-kasowski:donor_control2"
],
"sex": "unspecified",
"status": "preview",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO7396NRBT/",
"accession": "IGVFDO7396NRBT",
"aliases": [
"maya-kasowski:donor_4102"
],
"sex": "unspecified",
"status": "released",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO1836DUYP/",
"accession": "IGVFDO1836DUYP",
"aliases": [
"maya-kasowski:donor_4089"
],
"sex": "unspecified",
"status": "released",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO8056NEJH/",
"accession": "IGVFDO8056NEJH",
"aliases": [
"maya-kasowski:donor_4241"
],
"sex": "unspecified",
"status": "released",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO4373FEUT/",
"accession": "IGVFDO4373FEUT",
"aliases": [
"maya-kasowski:donor_4120"
],
"sex": "unspecified",
"status": "preview",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO4458ECNK/",
"accession": "IGVFDO4458ECNK",
"aliases": [
"maya-kasowski:donor_control1"
],
"sex": "unspecified",
"status": "preview",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO4733WBSW/",
"accession": "IGVFDO4733WBSW",
"aliases": [
"maya-kasowski:donor_4083"
],
"sex": "unspecified",
"status": "preview",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO9663VUZC/",
"accession": "IGVFDO9663VUZC",
"aliases": [
"maya-kasowski:donor_4232"
],
"sex": "unspecified",
"status": "released",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO1210OZHC/",
"accession": "IGVFDO1210OZHC",
"aliases": [
"maya-kasowski:donor_control3"
],
"sex": "unspecified",
"status": "preview",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO0516IWTA/",
"accession": "IGVFDO0516IWTA",
"aliases": [
"maya-kasowski:donor_control4"
],
"sex": "unspecified",
"status": "preview",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO2788XNBM/",
"accession": "IGVFDO2788XNBM",
"aliases": [
"maya-kasowski:donor_4048"
],
"sex": "unspecified",
"status": "released",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO6768UXWX/",
"accession": "IGVFDO6768UXWX",
"aliases": [
"maya-kasowski:donor_4260"
],
"sex": "unspecified",
"status": "released",
"taxa": "Homo sapiens"
},
{
"@id": "/human-donors/IGVFDO3006RCEY/",
"accession": "IGVFDO3006RCEY",
"aliases": [
"maya-kasowski:donor_4271"
],
"sex": "unspecified",
"status": "released",
"taxa": "Homo sapiens"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
"files": [
{
"@id": "/sequence-files/IGVFFI4486CTSO/",
"accession": "IGVFFI4486CTSO",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary1_lane1_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:01:41.971794+00:00",
"file_format": "fastq",
"file_size": 13508851033,
"href": "/sequence-files/IGVFFI4486CTSO/@@download/IGVFFI4486CTSO.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/bf38906d-1577-4046-ab12-928cdd3018e5/IGVFFI4486CTSO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL1/P2_SL1_CKDL230018051-1A_225LMWLT3_L1_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1272GYFL/",
"accession": "IGVFFI1272GYFL",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary1_lane2_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:04:57.735789+00:00",
"file_format": "fastq",
"file_size": 8620586755,
"href": "/sequence-files/IGVFFI1272GYFL/@@download/IGVFFI1272GYFL.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/2e525956-2e0c-4255-9ab9-92a16d38c261/IGVFFI1272GYFL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL1/P2_SL1_CKDL230018051-1A_225LMWLT3_L2_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7939FSNG/",
"accession": "IGVFFI7939FSNG",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary3_lane2_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:52:37.081771+00:00",
"file_format": "fastq",
"file_size": 8647330022,
"href": "/sequence-files/IGVFFI7939FSNG/@@download/IGVFFI7939FSNG.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/14b1d774-9900-4532-8f85-7c8b097192ef/IGVFFI7939FSNG.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL3/P2_SL3_CKDL230018051-1A_225LMWLT3_L2_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2261JRHK/",
"accession": "IGVFFI2261JRHK",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary4_lane1_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:57:48.586395+00:00",
"file_format": "fastq",
"file_size": 11612266494,
"href": "/sequence-files/IGVFFI2261JRHK/@@download/IGVFFI2261JRHK.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/bd04882d-5903-4770-aec2-cd59a175f2e7/IGVFFI2261JRHK.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL4/P2_SL4_CKDL230018051-1A_225LMWLT3_L1_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9902EFBH/",
"accession": "IGVFFI9902EFBH",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary3_lane1_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:41:40.704427+00:00",
"file_format": "fastq",
"file_size": 10878117071,
"href": "/sequence-files/IGVFFI9902EFBH/@@download/IGVFFI9902EFBH.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/6671dab5-a2d4-4f2b-9e33-8e18fcc2b5cc/IGVFFI9902EFBH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL3/P2_SL3_CKDL230018051-1A_225LMWLT3_L1_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1849DEZW/",
"accession": "IGVFFI1849DEZW",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary1_lane2_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:07:06.823298+00:00",
"file_format": "fastq",
"file_size": 10787566242,
"href": "/sequence-files/IGVFFI1849DEZW/@@download/IGVFFI1849DEZW.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/04d6d710-f9a1-43be-af35-19c525b473d7/IGVFFI1849DEZW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL1/P2_SL1_CKDL230018051-1A_225LMWLT3_L2_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0121SSXY/",
"accession": "IGVFFI0121SSXY",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary1_lane1_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T08:59:03.786194+00:00",
"file_format": "fastq",
"file_size": 10787642099,
"href": "/sequence-files/IGVFFI0121SSXY/@@download/IGVFFI0121SSXY.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/604c29c3-08e8-4819-a01a-0f545571835b/IGVFFI0121SSXY.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL1/P2_SL1_CKDL230018051-1A_225LMWLT3_L1_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3899WVFZ/",
"accession": "IGVFFI3899WVFZ",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary2_lane1_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:09:55.232625+00:00",
"file_format": "fastq",
"file_size": 11066017795,
"href": "/sequence-files/IGVFFI3899WVFZ/@@download/IGVFFI3899WVFZ.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/f3b0c036-e895-4a6c-b029-891d7c1cfc44/IGVFFI3899WVFZ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL2/P2_SL2_CKDL230018051-1A_225LMWLT3_L1_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9068DWZL/",
"accession": "IGVFFI9068DWZL",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary2_lane1_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:15:51.038897+00:00",
"file_format": "fastq",
"file_size": 13881141801,
"href": "/sequence-files/IGVFFI9068DWZL/@@download/IGVFFI9068DWZL.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/f1fc0509-f10c-414a-bd1f-e774dfade3ce/IGVFFI9068DWZL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL2/P2_SL2_CKDL230018051-1A_225LMWLT3_L1_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5546AHAO/",
"accession": "IGVFFI5546AHAO",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary2_lane2_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:24:18.717150+00:00",
"file_format": "fastq",
"file_size": 8826222450,
"href": "/sequence-files/IGVFFI5546AHAO/@@download/IGVFFI5546AHAO.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/98b88208-9058-45a8-87fb-9c7355af991a/IGVFFI5546AHAO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL2/P2_SL2_CKDL230018051-1A_225LMWLT3_L2_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3877UVLK/",
"accession": "IGVFFI3877UVLK",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary2_lane2_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:29:36.731753+00:00",
"file_format": "fastq",
"file_size": 11068900186,
"href": "/sequence-files/IGVFFI3877UVLK/@@download/IGVFFI3877UVLK.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/4bae90b1-e188-4618-9309-c66729e8d931/IGVFFI3877UVLK.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL2/P2_SL2_CKDL230018051-1A_225LMWLT3_L2_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8494SXMY/",
"accession": "IGVFFI8494SXMY",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary3_lane1_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:36:18.523190+00:00",
"file_format": "fastq",
"file_size": 8646211140,
"href": "/sequence-files/IGVFFI8494SXMY/@@download/IGVFFI8494SXMY.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/5ac237f6-24f2-4b94-bb79-6d7c8db95cc2/IGVFFI8494SXMY.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL3/P2_SL3_CKDL230018051-1A_225LMWLT3_L1_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0547JQCO/",
"accession": "IGVFFI0547JQCO",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary3_lane2_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T09:48:23.935347+00:00",
"file_format": "fastq",
"file_size": 6884442934,
"href": "/sequence-files/IGVFFI0547JQCO/@@download/IGVFFI0547JQCO.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/481c9142-b1c9-44f9-8081-b2ff90f04707/IGVFFI0547JQCO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL3/P2_SL3_CKDL230018051-1A_225LMWLT3_L2_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6043PBCM/",
"accession": "IGVFFI6043PBCM",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary4_lane1_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:03:31.410822+00:00",
"file_format": "fastq",
"file_size": 14594431599,
"href": "/sequence-files/IGVFFI6043PBCM/@@download/IGVFFI6043PBCM.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/1ad2d2d2-610a-4191-934f-bddf74a615e9/IGVFFI6043PBCM.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL4/P2_SL4_CKDL230018051-1A_225LMWLT3_L1_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1300PPWH/",
"accession": "IGVFFI1300PPWH",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary4_lane2_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:07:12.911388+00:00",
"file_format": "fastq",
"file_size": 9286297658,
"href": "/sequence-files/IGVFFI1300PPWH/@@download/IGVFFI1300PPWH.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/5c526378-13ed-41d1-afbd-773f1a488bb3/IGVFFI1300PPWH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL4/P2_SL4_CKDL230018051-1A_225LMWLT3_L2_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2619KVNC/",
"accession": "IGVFFI2619KVNC",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary4_lane2_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:09:22.425983+00:00",
"file_format": "fastq",
"file_size": 11660721496,
"href": "/sequence-files/IGVFFI2619KVNC/@@download/IGVFFI2619KVNC.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/e4d064e1-133e-43d4-af23-b820ebe05d4a/IGVFFI2619KVNC.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL4/P2_SL4_CKDL230018051-1A_225LMWLT3_L2_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2855EGOA/",
"accession": "IGVFFI2855EGOA",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary5_lane1_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:12:19.118553+00:00",
"file_format": "fastq",
"file_size": 9069326975,
"href": "/sequence-files/IGVFFI2855EGOA/@@download/IGVFFI2855EGOA.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/0188b544-edf2-4dd1-8ba6-01361c82f84b/IGVFFI2855EGOA.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL5/P2_SL5_CKDL230018051-1A_225LMWLT3_L1_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2879NWVB/",
"accession": "IGVFFI2879NWVB",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary5_lane1_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:15:13.611231+00:00",
"file_format": "fastq",
"file_size": 11318171487,
"href": "/sequence-files/IGVFFI2879NWVB/@@download/IGVFFI2879NWVB.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/160217b2-aacc-46fa-98d3-9d14d88597e4/IGVFFI2879NWVB.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL5/P2_SL5_CKDL230018051-1A_225LMWLT3_L1_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5614IBJD/",
"accession": "IGVFFI5614IBJD",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary5_lane2_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:22:20.629830+00:00",
"file_format": "fastq",
"file_size": 7218220637,
"href": "/sequence-files/IGVFFI5614IBJD/@@download/IGVFFI5614IBJD.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/081003a8-e167-4ac7-b279-5a12073dab73/IGVFFI5614IBJD.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL5/P2_SL5_CKDL230018051-1A_225LMWLT3_L2_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5556FJGV/",
"accession": "IGVFFI5556FJGV",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary5_lane2_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:26:51.642072+00:00",
"file_format": "fastq",
"file_size": 8996835490,
"href": "/sequence-files/IGVFFI5556FJGV/@@download/IGVFFI5556FJGV.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/7ebe9571-83b4-48a4-a785-9b6b66708dcc/IGVFFI5556FJGV.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL5/P2_SL5_CKDL230018051-1A_225LMWLT3_L2_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2369VLZV/",
"accession": "IGVFFI2369VLZV",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary6_lane1_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:32:30.446167+00:00",
"file_format": "fastq",
"file_size": 10979823863,
"href": "/sequence-files/IGVFFI2369VLZV/@@download/IGVFFI2369VLZV.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/c091a776-d8d0-485c-a830-90431827e118/IGVFFI2369VLZV.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL6/P2_SL6_CKDL230018051-1A_225LMWLT3_L1_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0066OTMI/",
"accession": "IGVFFI0066OTMI",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary6_lane1_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:36:34.137504+00:00",
"file_format": "fastq",
"file_size": 13828841975,
"href": "/sequence-files/IGVFFI0066OTMI/@@download/IGVFFI0066OTMI.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/7fb4d6e1-68f1-4f77-b941-7297a4df1df9/IGVFFI0066OTMI.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL6/P2_SL6_CKDL230018051-1A_225LMWLT3_L1_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7025ZNTK/",
"accession": "IGVFFI7025ZNTK",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary6_lane2_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:40:32.131268+00:00",
"file_format": "fastq",
"file_size": 8777053393,
"href": "/sequence-files/IGVFFI7025ZNTK/@@download/IGVFFI7025ZNTK.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/64ce30ad-1a70-4c00-a699-2f8d63fa1e33/IGVFFI7025ZNTK.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL6/P2_SL6_CKDL230018051-1A_225LMWLT3_L2_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0085GQEP/",
"accession": "IGVFFI0085GQEP",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary6_lane2_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:46:14.369523+00:00",
"file_format": "fastq",
"file_size": 11036969630,
"href": "/sequence-files/IGVFFI0085GQEP/@@download/IGVFFI0085GQEP.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/5e7b681f-68a4-4c77-985d-35c89084cc6a/IGVFFI0085GQEP.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL6/P2_SL6_CKDL230018051-1A_225LMWLT3_L2_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4398LFDE/",
"accession": "IGVFFI4398LFDE",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary7_lane1_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:53:19.115894+00:00",
"file_format": "fastq",
"file_size": 10721550172,
"href": "/sequence-files/IGVFFI4398LFDE/@@download/IGVFFI4398LFDE.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/acf86b70-22f1-49dc-bc95-78b05b2ac8d2/IGVFFI4398LFDE.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL7/P2_SL7_CKDL230018051-1A_225LMWLT3_L1_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7668ZAXW/",
"accession": "IGVFFI7668ZAXW",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary7_lane1_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T10:59:58.674081+00:00",
"file_format": "fastq",
"file_size": 13440273732,
"href": "/sequence-files/IGVFFI7668ZAXW/@@download/IGVFFI7668ZAXW.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/f0cf97de-cea9-4190-9564-4d00373109b1/IGVFFI7668ZAXW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL7/P2_SL7_CKDL230018051-1A_225LMWLT3_L1_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4667BLBV/",
"accession": "IGVFFI4667BLBV",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary7_lane2_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T11:08:20.208475+00:00",
"file_format": "fastq",
"file_size": 8567169138,
"href": "/sequence-files/IGVFFI4667BLBV/@@download/IGVFFI4667BLBV.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/39b21a91-0620-42c3-abea-ad3f3cf24826/IGVFFI4667BLBV.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL7/P2_SL7_CKDL230018051-1A_225LMWLT3_L2_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2909PLHT/",
"accession": "IGVFFI2909PLHT",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary7_lane2_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T11:10:42.521163+00:00",
"file_format": "fastq",
"file_size": 10697667192,
"href": "/sequence-files/IGVFFI2909PLHT/@@download/IGVFFI2909PLHT.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/b0365061-8b73-4c42-bdcc-212e27910a93/IGVFFI2909PLHT.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL7/P2_SL7_CKDL230018051-1A_225LMWLT3_L2_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4143QKEY/",
"accession": "IGVFFI4143QKEY",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary8_lane1_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T11:13:26.542987+00:00",
"file_format": "fastq",
"file_size": 6345962895,
"href": "/sequence-files/IGVFFI4143QKEY/@@download/IGVFFI4143QKEY.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/9542ae16-353b-4478-a65c-21beaa2cabe4/IGVFFI4143QKEY.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL8/P2_SL8_CKDL230018051-1A_225LMWLT3_L1_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3722EISV/",
"accession": "IGVFFI3722EISV",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary8_lane1_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T11:14:58.343511+00:00",
"file_format": "fastq",
"file_size": 7864824754,
"href": "/sequence-files/IGVFFI3722EISV/@@download/IGVFFI3722EISV.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/863e6293-f0b9-4c5c-b3ff-b4eae46f1718/IGVFFI3722EISV.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL8/P2_SL8_CKDL230018051-1A_225LMWLT3_L1_2.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8637PGIE/",
"accession": "IGVFFI8637PGIE",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary8_lane2_R1"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T11:16:48.920063+00:00",
"file_format": "fastq",
"file_size": 5042231048,
"href": "/sequence-files/IGVFFI8637PGIE/@@download/IGVFFI8637PGIE.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/b6f8b638-08bd-4ee2-98e3-1f038e64db2b/IGVFFI8637PGIE.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL8/P2_SL8_CKDL230018051-1A_225LMWLT3_L2_1.fq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0016JZYO/",
"accession": "IGVFFI0016JZYO",
"aliases": [
"maya-kasowski:Parse_P2_scRNA_sublibrary8_lane2_R2"
],
"content_type": "reads",
"controlled_access": true,
"creation_timestamp": "2025-03-09T11:18:11.150755+00:00",
"file_format": "fastq",
"file_size": 6228891144,
"href": "/sequence-files/IGVFFI0016JZYO/@@download/IGVFFI0016JZYO.fastq.gz",
"s3_uri": "s3://igvf-restricted-files/2025/03/09/312d394a-7f75-444e-a4b8-e805066060f3/IGVFFI0016JZYO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022841/",
"status": "released",
"term_name": "Illumina NovaSeq X Plus"
},
"status": "preview",
"submitted_file_name": "/users/shouvikm/data/Parse/P2/usftp21.novogene.com/01.RawData/P2_SL8/P2_SL8_CKDL230018051-1A_225LMWLT3_L2_2.fq.gz",
"upload_status": "validated"
}
],
"input_for": [],
"lab": {
"@id": "/labs/maya-kasowski/",
"title": "Maya Kasowski, Stanford"
},
"preferred_assay_title": "Parse SPLiT-seq",
"protocols": [
"https://www.protocols.io/view/parse-evercode-wt-v2-0-1-protocol-university-of-mi-rm7vzbzx2vx1/v1"
],
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM4252CQLW/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM4252CQLW",
"aliases": [
"maya-kasowski:multiplexed_samples_Parse_P2"
],
"classifications": [
"primary cell",
"multiplexed sample"
],
"disease_terms": [],
"institutional_certificates": [
{
"@id": "/institutional-certificates/5d9a7abd-9957-4b1a-91cd-72ce9610785c/",
"certificate_identifier": "IP115-20",
"controlled_access": true,
"data_use_limitation": "GRU",
"status": "released"
}
],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/UBERON_0002371/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "bone marrow",
"term_name": "bone marrow"
},
{
"@id": "/sample-terms/UBERON_0012168/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "umbilical cord blood",
"term_name": "umbilical cord blood"
}
],
"status": "preview",
"summary": "multiplexed sample: Homo sapiens bone marrow cell; Homo sapiens umbilical cord blood cell; ... and 12 more samples",
"taxa": "Homo sapiens",
"treatments": []
}
],
"schema_version": "26",
"status": "preview",
"submitted_by": {
"@id": "/users/2bebcf9d-414f-4058-8d97-00020741a419/",
"title": "Shouvik Mani"
},
"submitted_files_timestamp": "2025-03-09T08:59:03.786194+00:00",
"summary": "Parse SPLiT-seq",
"uuid": "e987c389-e255-4128-a20f-1a8ccce2aa75"
}