{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS1253DLDL/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS1253DLDL",
"assay_term": {
"@id": "/assay-terms/OBI_0002675/",
"status": "released",
"term_name": "massively parallel reporter assay"
},
"audit": {},
"auxiliary_sets": [
{
"@id": "/auxiliary-sets/IGVFDS3325AHYB/",
"accession": "IGVFDS3325AHYB",
"file_set_type": "quantification DNA barcode sequencing",
"status": "released"
}
],
"award": {
"@id": "/awards/HG011966/",
"component": "functional characterization",
"contact_pi": {
"@id": "/users/eb543cda-67b7-493c-84eb-187d0dac13ba/",
"title": "Jay Shendure"
},
"title": "Massively parallel characterization of variants and elements impacting transcriptional regulation in dynamic cellular systems"
},
"control_for": [],
"creation_timestamp": "2024-03-19T14:24:44.333824+00:00",
"donors": [
{
"@id": "/human-donors/IGVFDO7918LJOI/",
"accession": "IGVFDO7918LJOI",
"sex": "unspecified",
"status": "released",
"taxa": "Homo sapiens"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
"files": [
{
"@id": "/sequence-files/IGVFFI2104GOOJ/",
"accession": "IGVFFI2104GOOJ",
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-03-19T14:30:13.773355+00:00",
"file_format": "fastq",
"file_size": 661317361,
"href": "/sequence-files/IGVFFI2104GOOJ/@@download/IGVFFI2104GOOJ.fastq.gz",
"s3_uri": "s3://igvf-files/2024/03/19/0ca61b96-a044-4b23-ab36-4183db37cafd/IGVFFI2104GOOJ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0009173/",
"status": "released",
"term_name": "Illumina NextSeq 500"
},
"status": "released",
"submitted_file_name": "\"/data/cephfs-2/unmirrored/groups/kircher/IGVF_data_submssion_TM/ASD_nadav/counts/TSTFI52170128RNA_rep1_R1.fastq.gz\"",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1100CEBW/",
"accession": "IGVFFI1100CEBW",
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-03-19T14:36:27.881804+00:00",
"file_format": "fastq",
"file_size": 573492540,
"href": "/sequence-files/IGVFFI1100CEBW/@@download/IGVFFI1100CEBW.fastq.gz",
"s3_uri": "s3://igvf-files/2024/03/19/37879bc4-660e-429b-82f0-0e1a693cbbb8/IGVFFI1100CEBW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0009173/",
"status": "released",
"term_name": "Illumina NextSeq 500"
},
"status": "released",
"submitted_file_name": "\"/data/cephfs-2/unmirrored/groups/kircher/IGVF_data_submssion_TM/ASD_nadav/counts/TSTFI76758594RNA_rep1_R2.fastq.gz\"",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5314QYSA/",
"accession": "IGVFFI5314QYSA",
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-03-19T14:36:29.260248+00:00",
"file_format": "fastq",
"file_size": 662476849,
"href": "/sequence-files/IGVFFI5314QYSA/@@download/IGVFFI5314QYSA.fastq.gz",
"s3_uri": "s3://igvf-files/2024/03/19/296327ef-d820-4ddd-99d2-c287c1041ebc/IGVFFI5314QYSA.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0009173/",
"status": "released",
"term_name": "Illumina NextSeq 500"
},
"status": "released",
"submitted_file_name": "\"/data/cephfs-2/unmirrored/groups/kircher/IGVF_data_submssion_TM/ASD_nadav/counts/TSTFI73286506RNA_rep1_R3.fastq.gz\"",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI3600TXCE/",
"accession": "IGVFFI3600TXCE",
"content_type": "seqspec",
"creation_timestamp": "2024-11-22T10:21:28.863403+00:00",
"file_format": "yaml",
"file_size": 1272,
"href": "/configuration-files/IGVFFI3600TXCE/@@download/IGVFFI3600TXCE.yaml.gz",
"s3_uri": "s3://igvf-files/2024/11/22/388c7439-5d3f-492d-9725-2ca3c9d5ca19/IGVFFI3600TXCE.yaml.gz",
"status": "released",
"submitted_file_name": "\"/data/cephfs-2/unmirrored/groups/kircher/IGVF_data_submssion_TM/ASD_nadav/counts/seqspec/IGVF_shendure_asd_count_rep1_rna.yaml.gz\"",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS2165KBMD/",
"/analysis-sets/IGVFDS5394QLIN/"
],
"lab": {
"@id": "/labs/nadav-ahituv/",
"title": "Nadav Ahituv, UCSF"
},
"preferred_assay_title": "lentiMPRA",
"protocols": [
"https://www.protocols.io/view/massive-parallel-reporter-assay-mpra-kxygxpmkwl8j/v1"
],
"publications": [
{
"@id": "/publications/a9a39fe1-5a47-429f-86d6-a4013dbeba2d/",
"publication_identifiers": [
"PMID:36834916"
],
"status": "released"
}
],
"release_timestamp": "2025-01-09T20:34:27.855214+00:00",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM0720XHJA/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM0720XHJA",
"classifications": [
"pooled cell specimen"
],
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS9668QVZD/",
"accession": "IGVFDS9668QVZD",
"file_set_type": "reporter library",
"status": "released",
"summary": "reporter library targeting histone modifications, transcription start sites genome-wide associated with autism spectrum disorder"
}
],
"sample_terms": [
{
"@id": "/sample-terms/CL_0011020/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "neural progenitor cell",
"term_name": "neural progenitor cell"
}
],
"status": "released",
"summary": "neural progenitor pooled cell specimen, Homo sapiens transfected with a reporter library",
"taxa": "Homo sapiens"
}
],
"schema_version": "23",
"status": "released",
"submitted_by": {
"@id": "/users/696ac72c-9846-469d-8bf1-8bd01856d4ba/",
"title": "Thorben Maass"
},
"submitted_files_timestamp": "2024-03-19T14:30:13.773355+00:00",
"summary": "lentiMPRA integrating a reporter library targeting histone modifications, transcription start sites genome-wide associated with autism spectrum disorder",
"uuid": "1fc79e63-5472-45a2-9047-f88acb390f45"
}