{
"@context": "/terms/",
"@id": "/analysis-sets/IGVFDS6435PZKD/",
"@type": [
"AnalysisSet",
"FileSet",
"Item"
],
"accession": "IGVFDS6435PZKD",
"aliases": [
"harinder-singh:Bcells_don1_pitt_multiome_day34_analysis_set"
],
"assay_titles": [
"10x multiome"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Preview matrix file [IGVFFI6264EXYJ](/matrix-files/IGVFFI6264EXYJ/) has in progress subobject reference file [IGVFFI0493XRYZ](/reference-files/IGVFFI0493XRYZ/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/matrix-files/IGVFFI6264EXYJ/"
}
]
},
"award": {
"@id": "/awards/HG012041/",
"component": "networks",
"contact_pi": {
"@id": "/users/5d389fb5-2279-4778-87ca-c20b8536998f/",
"title": "Harinder Singh"
},
"title": "Linking genome variation to transcriptional network dynamics in human B cells"
},
"control_for": [],
"controlled_access": true,
"creation_timestamp": "2025-04-01T14:50:01.536107+00:00",
"data_use_limitation_summaries": [
"HMB"
],
"donors": [
{
"@id": "/human-donors/IGVFDO9916UELD/",
"accession": "IGVFDO9916UELD",
"aliases": [
"harinder-singh:donor_1"
],
"sex": "male",
"status": "preview",
"taxa": "Homo sapiens"
}
],
"file_set_type": "intermediate analysis",
"files": [
{
"@id": "/matrix-files/IGVFFI6264EXYJ/",
"accession": "IGVFFI6264EXYJ",
"aliases": [
"harinder-singh:Bcells_don1_pitt_multiome_day34_gex_molecule_info_mtx"
],
"content_type": "raw feature barcode matrix",
"creation_timestamp": "2025-04-02T02:05:55.893221+00:00",
"derived_from": [
"/sequence-files/IGVFFI8389SWIL/",
"/sequence-files/IGVFFI7276KNSD/",
"/sequence-files/IGVFFI8210DUXK/",
"/sequence-files/IGVFFI4754WBVU/",
"/sequence-files/IGVFFI0858JEDK/",
"/sequence-files/IGVFFI3809MZGB/",
"/sequence-files/IGVFFI6401JQRI/",
"/sequence-files/IGVFFI1760TVBV/",
"/sequence-files/IGVFFI4770YTVM/",
"/sequence-files/IGVFFI9775SPUL/",
"/sequence-files/IGVFFI5698ITUN/",
"/sequence-files/IGVFFI7323FHZB/",
"/sequence-files/IGVFFI1741LAQC/",
"/sequence-files/IGVFFI8015QJHV/",
"/sequence-files/IGVFFI3786SEFI/",
"/sequence-files/IGVFFI5565FXUQ/",
"/sequence-files/IGVFFI6496AKAU/",
"/sequence-files/IGVFFI0925YNIR/",
"/sequence-files/IGVFFI4773DJGK/",
"/sequence-files/IGVFFI6038JRBU/",
"/sequence-files/IGVFFI7586DTSE/",
"/sequence-files/IGVFFI2558BTKW/",
"/sequence-files/IGVFFI8476OYHK/",
"/sequence-files/IGVFFI9880OPPQ/"
],
"file_format": "hdf5",
"file_size": 404956675,
"href": "/matrix-files/IGVFFI6264EXYJ/@@download/IGVFFI6264EXYJ.h5",
"md5sum": "ed750c4f9f2ac5ba428254ac7399ab26",
"s3_uri": "s3://igvf-files/2025/04/02/b08ad3b5-d29b-486c-bd99-4a398e65488e/IGVFFI6264EXYJ.h5",
"status": "preview",
"submitted_file_name": "/ix/djishnu/Common_Folder/Jingyu_Data/multiome_1st_donor_UPMC_day3_4/outs/gex_molecule_info.h5",
"upload_status": "validated"
},
{
"@id": "/tabular-files/IGVFFI4952WUWY/",
"accession": "IGVFFI4952WUWY",
"aliases": [
"harinder-singh:Bcells_don1_pitt_multiome_day34_atac_fragments"
],
"content_type": "fragments",
"controlled_access": true,
"creation_timestamp": "2025-04-02T02:17:47.445328+00:00",
"derived_from": [
"/sequence-files/IGVFFI8389SWIL/",
"/sequence-files/IGVFFI7276KNSD/",
"/sequence-files/IGVFFI8210DUXK/",
"/sequence-files/IGVFFI4754WBVU/",
"/sequence-files/IGVFFI0858JEDK/",
"/sequence-files/IGVFFI3809MZGB/",
"/sequence-files/IGVFFI6401JQRI/",
"/sequence-files/IGVFFI1760TVBV/",
"/sequence-files/IGVFFI4770YTVM/",
"/sequence-files/IGVFFI9775SPUL/",
"/sequence-files/IGVFFI5698ITUN/",
"/sequence-files/IGVFFI7323FHZB/",
"/sequence-files/IGVFFI1741LAQC/",
"/sequence-files/IGVFFI8015QJHV/",
"/sequence-files/IGVFFI3786SEFI/",
"/sequence-files/IGVFFI5565FXUQ/",
"/sequence-files/IGVFFI6496AKAU/",
"/sequence-files/IGVFFI0925YNIR/",
"/sequence-files/IGVFFI4773DJGK/",
"/sequence-files/IGVFFI6038JRBU/",
"/sequence-files/IGVFFI7586DTSE/",
"/sequence-files/IGVFFI2558BTKW/",
"/sequence-files/IGVFFI8476OYHK/",
"/sequence-files/IGVFFI9880OPPQ/"
],
"file_format": "tsv",
"file_size": 1941206127,
"href": "/tabular-files/IGVFFI4952WUWY/@@download/IGVFFI4952WUWY.tsv.gz",
"md5sum": "ad9a42b351f902a9625c69547a36455a",
"s3_uri": "s3://igvf-restricted-files/2025/04/02/1d2015cc-a8bf-438b-8e29-05d937f3bb4c/IGVFFI4952WUWY.tsv.gz",
"status": "preview",
"submitted_file_name": "/ix/djishnu/Common_Folder/Jingyu_Data/multiome_1st_donor_UPMC_day3_4/outs/atac_fragments.tsv.gz",
"upload_status": "validated"
},
{
"@id": "/tabular-files/IGVFFI9369ZIUB/",
"accession": "IGVFFI9369ZIUB",
"aliases": [
"harinder-singh:Bcells_don1_pitt_multiome_day34_per_barcode_metrics"
],
"content_type": "barcode to element mapping",
"controlled_access": true,
"creation_timestamp": "2025-04-02T02:19:27.347198+00:00",
"derived_from": [
"/sequence-files/IGVFFI8389SWIL/",
"/sequence-files/IGVFFI7276KNSD/",
"/sequence-files/IGVFFI8210DUXK/",
"/sequence-files/IGVFFI4754WBVU/",
"/sequence-files/IGVFFI0858JEDK/",
"/sequence-files/IGVFFI3809MZGB/",
"/sequence-files/IGVFFI6401JQRI/",
"/sequence-files/IGVFFI1760TVBV/",
"/sequence-files/IGVFFI4770YTVM/",
"/sequence-files/IGVFFI9775SPUL/",
"/sequence-files/IGVFFI5698ITUN/",
"/sequence-files/IGVFFI7323FHZB/",
"/sequence-files/IGVFFI1741LAQC/",
"/sequence-files/IGVFFI8015QJHV/",
"/sequence-files/IGVFFI3786SEFI/",
"/sequence-files/IGVFFI5565FXUQ/",
"/sequence-files/IGVFFI6496AKAU/",
"/sequence-files/IGVFFI0925YNIR/",
"/sequence-files/IGVFFI4773DJGK/",
"/sequence-files/IGVFFI6038JRBU/",
"/sequence-files/IGVFFI7586DTSE/",
"/sequence-files/IGVFFI2558BTKW/",
"/sequence-files/IGVFFI8476OYHK/",
"/sequence-files/IGVFFI9880OPPQ/"
],
"file_format": "csv",
"file_size": 17184798,
"href": "/tabular-files/IGVFFI9369ZIUB/@@download/IGVFFI9369ZIUB.csv.gz",
"md5sum": "230c918bc4234deedbcb9822f876af25",
"s3_uri": "s3://igvf-restricted-files/2025/04/02/6e5a1a71-b879-4fa4-b487-7f646de7d7a9/IGVFFI9369ZIUB.csv.gz",
"status": "preview",
"submitted_file_name": "/ix/djishnu/peasena/primary_multiome/donor1_upmc/cellranger_intermediate_files/day34/per_barcode_metrics.csv.gz",
"upload_status": "validated"
}
],
"functional_assay_mechanisms": [],
"input_file_sets": [
{
"@id": "/measurement-sets/IGVFDS8822AFTR/",
"accession": "IGVFDS8822AFTR",
"aliases": [
"harinder-singh:Bcells_don1_pitt_multiome_scRNAseq_day34_measurement"
],
"file_set_type": "experimental data",
"status": "preview"
},
{
"@id": "/measurement-sets/IGVFDS8967LLYA/",
"accession": "IGVFDS8967LLYA",
"aliases": [
"harinder-singh:Bcells_don1_pitt_multiome_scATACseq_day34_measurement"
],
"file_set_type": "experimental data",
"status": "preview"
}
],
"input_for": [
"/analysis-sets/IGVFDS8424XWBB/"
],
"lab": {
"@id": "/labs/harinder-singh/",
"title": "Harinder Singh, University of Pittsburgh"
},
"protocols": [
"https://www.protocols.io/file/rv9ucg3if.pdf"
],
"sample_summary": "Homo sapiens B differentiated cell specimen induced to plasmablast, at 4 day(s) post change",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM0680KMXT/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM0680KMXT",
"aliases": [
"harinder-singh:D34_Bcells_don1_pitt_multiome"
],
"classifications": [
"differentiated cell specimen"
],
"institutional_certificates": [
{
"@id": "/institutional-certificates/4786e123-f40d-4b08-aa06-b5f35e9cc453/",
"certificate_identifier": "IP108-01",
"controlled_access": true,
"data_use_limitation": "HMB",
"status": "in progress"
}
],
"sample_terms": [
{
"@id": "/sample-terms/CL_0000236/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "B cell",
"term_name": "B cell"
}
],
"status": "preview",
"summary": "Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 4 days",
"targeted_sample_term": {
"@id": "/sample-terms/CL_0000980/",
"status": "released",
"term_name": "plasmablast"
},
"taxa": "Homo sapiens"
}
],
"schema_version": "9",
"status": "preview",
"submitted_by": {
"@id": "/users/d2668d67-5e6f-49e8-82ca-7bb12229f892/",
"title": "Nicholas Pease"
},
"submitted_files_timestamp": "2025-04-02T02:05:55.893221+00:00",
"summary": "single-nucleus ATAC-seq (10x multiome), single-nucleus RNA sequencing assay (10x multiome)",
"uuid": "db82be92-53fd-4c3d-8d5f-20d0d7ccf4ab",
"workflows": [
{
"@id": "/workflows/IGVFWF8495CUNO/",
"accession": "IGVFWF8495CUNO",
"name": "Singh Single Cell Multiome Workflow",
"status": "in progress",
"uniform_pipeline": false
}
]
}