{
"@context": "/terms/",
"@id": "/analysis-sets/IGVFDS2622CKLA/",
"@type": [
"AnalysisSet",
"FileSet",
"Item"
],
"accession": "IGVFDS2622CKLA",
"aliases": [
"jay-shendure:analysis_set_scQers_mEBs_bulk"
],
"assay_titles": [
"MPRA"
],
"audit": {
"NOT_COMPLIANT": [
{
"category": "missing file format specifications",
"detail": "Tabular file [IGVFFI0292XWJM](/tabular-files/IGVFFI0292XWJM/) has no `file_format_specifications`. Tabular files are expected to link to a file format specifications document describing the headers of the file.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_tabular_file_no_file_format_specifications",
"path": "/tabular-files/IGVFFI0292XWJM/"
}
],
"WARNING": [
{
"category": "missing analysis step version",
"detail": "Analysis set [IGVFDS2622CKLA](/analysis-sets/IGVFDS2622CKLA/) links to file(s) [IGVFFI0292XWJM](/tabular-files/IGVFFI0292XWJM/) that are missing `analysis_step_version`. Analysis set files are expected to specify analysis step version.",
"level": 40,
"level_name": "WARNING",
"name": "audit_analysis_set_files_missing_analysis_step_version",
"path": "/analysis-sets/IGVFDS2622CKLA/"
}
]
},
"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": "2023-12-12T23:07:38.631554+00:00",
"donors": [
{
"@id": "/rodent-donors/IGVFDO3898MNLZ/",
"accession": "IGVFDO3898MNLZ",
"aliases": [
"jay-shendure:WD44_donor"
],
"sex": "male",
"status": "released",
"taxa": "Mus musculus"
}
],
"file_set_type": "principal analysis",
"files": [
{
"@id": "/tabular-files/IGVFFI0292XWJM/",
"accession": "IGVFFI0292XWJM",
"aliases": [
"jay-shendure:tabularfile_CREs_bulkMPRA-counts_LaLanne"
],
"content_type": "element quantifications",
"creation_timestamp": "2024-05-07T19:59:38.674958+00:00",
"file_format": "tsv",
"file_size": 15792452,
"href": "/tabular-files/IGVFFI0292XWJM/@@download/IGVFFI0292XWJM.tsv.gz",
"s3_uri": "s3://igvf-files/2024/05/07/caa494e1-8ba0-4186-97a1-3a88a6cd8f34/IGVFFI0292XWJM.txt.gz",
"submitted_file_name": "/net/shendure/vol10/projects/JBL/IGVF_for_Beth_nobackup/bulk_MPRA_counts_mEB_series.txt.gz",
"upload_status": "validated"
}
],
"functional_assay_mechanisms": [],
"input_file_set_for": [],
"input_file_sets": [
{
"@id": "/curated-sets/IGVFDS0238EDXB/",
"accession": "IGVFDS0238EDXB",
"aliases": [
"jay-shendure:curatedset_CREs_LaLanne"
],
"file_set_type": "elements"
},
{
"@id": "/auxiliary-sets/IGVFDS1491XCOB/",
"accession": "IGVFDS1491XCOB",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day0_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS2513FWFN/",
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"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day2_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS9987GJPC/",
"accession": "IGVFDS9987GJPC",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day4_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS3729YOSL/",
"accession": "IGVFDS3729YOSL",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day6_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS1683YYFI/",
"accession": "IGVFDS1683YYFI",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day8_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS0774ETMA/",
"accession": "IGVFDS0774ETMA",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day10_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS7059CWBY/",
"accession": "IGVFDS7059CWBY",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day12_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS1064LHGI/",
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"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day14_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS8347TPDV/",
"accession": "IGVFDS8347TPDV",
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"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day16_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS4928ZASL/",
"accession": "IGVFDS4928ZASL",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day18_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS0034QRTM/",
"accession": "IGVFDS0034QRTM",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day20_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS0085UXQX/",
"accession": "IGVFDS0085UXQX",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_DNA_day21_reads"
],
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},
{
"@id": "/auxiliary-sets/IGVFDS1266BCGD/",
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"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day0_reads"
],
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},
{
"@id": "/auxiliary-sets/IGVFDS2885IUWV/",
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"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day2_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS8473JDSO/",
"accession": "IGVFDS8473JDSO",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day4_reads"
],
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},
{
"@id": "/auxiliary-sets/IGVFDS8519NOEI/",
"accession": "IGVFDS8519NOEI",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day6_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS9488YMYJ/",
"accession": "IGVFDS9488YMYJ",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day8_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS4952VFOW/",
"accession": "IGVFDS4952VFOW",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day10_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS6212LCHT/",
"accession": "IGVFDS6212LCHT",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day12_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS3480ASIH/",
"accession": "IGVFDS3480ASIH",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day14_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS2965JJYR/",
"accession": "IGVFDS2965JJYR",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day16_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS2809UYNF/",
"accession": "IGVFDS2809UYNF",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day18_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS2637WTJT/",
"accession": "IGVFDS2637WTJT",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day20_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS7145WTJW/",
"accession": "IGVFDS7145WTJW",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day21_reads"
],
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},
{
"@id": "/auxiliary-sets/IGVFDS6028VFBK/",
"accession": "IGVFDS6028VFBK",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_DNA_day0_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS8746LSXO/",
"accession": "IGVFDS8746LSXO",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_DNA_day4_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS3935KLZM/",
"accession": "IGVFDS3935KLZM",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_DNA_day8_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS2370ZRIR/",
"accession": "IGVFDS2370ZRIR",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_DNA_day12_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS3325YLRC/",
"accession": "IGVFDS3325YLRC",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_DNA_day16_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS3396QFZY/",
"accession": "IGVFDS3396QFZY",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_DNA_day18_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS2392JXXP/",
"accession": "IGVFDS2392JXXP",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_DNA_day20_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS4218HPCH/",
"accession": "IGVFDS4218HPCH",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_DNA_day0_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS2989BOYC/",
"accession": "IGVFDS2989BOYC",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_DNA_day6_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS4286KGNY/",
"accession": "IGVFDS4286KGNY",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_DNA_day8_reads"
],
"file_set_type": "quantification DNA barcode sequencing"
},
{
"@id": "/auxiliary-sets/IGVFDS3255PUEZ/",
"accession": "IGVFDS3255PUEZ",
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"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_DNA_day12_reads"
],
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},
{
"@id": "/auxiliary-sets/IGVFDS3976EEWC/",
"accession": "IGVFDS3976EEWC",
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"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_DNA_day16_reads"
],
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},
{
"@id": "/auxiliary-sets/IGVFDS6740RMZS/",
"accession": "IGVFDS6740RMZS",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_DNA_day18_reads"
],
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},
{
"@id": "/auxiliary-sets/IGVFDS5752IJZA/",
"accession": "IGVFDS5752IJZA",
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"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_DNA_day20_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS8101YKZJ/",
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"jay-shendure:dev_CRE_mEBs_repA_bulk_RNA_day0_reads"
],
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},
{
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],
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},
{
"@id": "/measurement-sets/IGVFDS9853FXPT/",
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"jay-shendure:dev_CRE_mEBs_repA_bulk_RNA_day4_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS3958ZVDP/",
"accession": "IGVFDS3958ZVDP",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_RNA_day6_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS7547SYUP/",
"accession": "IGVFDS7547SYUP",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_RNA_day8_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS2982RXPU/",
"accession": "IGVFDS2982RXPU",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_RNA_day10_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS6051XFAQ/",
"accession": "IGVFDS6051XFAQ",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_RNA_day12_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS9566FDYZ/",
"accession": "IGVFDS9566FDYZ",
"aliases": [
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],
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},
{
"@id": "/measurement-sets/IGVFDS9654ACTQ/",
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"jay-shendure:dev_CRE_mEBs_repA_bulk_RNA_day16_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS1500XNWW/",
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],
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},
{
"@id": "/measurement-sets/IGVFDS6935HPTC/",
"accession": "IGVFDS6935HPTC",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_RNA_day20_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS2236AYJF/",
"accession": "IGVFDS2236AYJF",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repA_bulk_RNA_day21_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS0200DGEO/",
"accession": "IGVFDS0200DGEO",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day0_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS2290VBBK/",
"accession": "IGVFDS2290VBBK",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day2_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS6355YALJ/",
"accession": "IGVFDS6355YALJ",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day4_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS0115ZUKE/",
"accession": "IGVFDS0115ZUKE",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day6_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS2172PVLM/",
"accession": "IGVFDS2172PVLM",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day8_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS7261GFNR/",
"accession": "IGVFDS7261GFNR",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day10_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS8920YVYN/",
"accession": "IGVFDS8920YVYN",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day12_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS0885VFHW/",
"accession": "IGVFDS0885VFHW",
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"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day14_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS9342OPKS/",
"accession": "IGVFDS9342OPKS",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day16_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS7930QJVE/",
"accession": "IGVFDS7930QJVE",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day18_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS9455REXF/",
"accession": "IGVFDS9455REXF",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day20_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS3004XBIY/",
"accession": "IGVFDS3004XBIY",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day21_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS9778WLEE/",
"accession": "IGVFDS9778WLEE",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_RNA_day0_reads"
],
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},
{
"@id": "/measurement-sets/IGVFDS8540VFIL/",
"accession": "IGVFDS8540VFIL",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_RNA_day4_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS0571IOSL/",
"accession": "IGVFDS0571IOSL",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_RNA_day8_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS1416HRTP/",
"accession": "IGVFDS1416HRTP",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_RNA_day12_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS8017QBHO/",
"accession": "IGVFDS8017QBHO",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_RNA_day16_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS7581EZJY/",
"accession": "IGVFDS7581EZJY",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_RNA_day18_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS0953UCYV/",
"accession": "IGVFDS0953UCYV",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_RNA_day20_reads"
],
"file_set_type": "experimental data"
},
{
"@id": "/measurement-sets/IGVFDS2047KEEM/",
"accession": "IGVFDS2047KEEM",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_RNA_day0_reads"
],
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},
{
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"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM1576AJXB/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM1576AJXB",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_day12"
],
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],
"classifications": [
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],
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],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 12 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM3546ITTD/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM3546ITTD",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_day14"
],
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"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
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],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 14 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM8780MGRB/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM8780MGRB",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_day16"
],
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"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
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],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 16 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM2212NOOQ/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM2212NOOQ",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_day18"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
"/construct-library-sets/IGVFDS7655GRFI/"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 18 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM0731AZZQ/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM0731AZZQ",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_day20"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
"/construct-library-sets/IGVFDS7655GRFI/"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 20 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM7280CZVB/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM7280CZVB",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_day21"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
"/construct-library-sets/IGVFDS7655GRFI/"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 21 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM1671CSBE/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM1671CSBE",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_day0"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
"/construct-library-sets/IGVFDS7655GRFI/"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM3811HZXX/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM3811HZXX",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_day4"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
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],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 4 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM0091UGGN/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM0091UGGN",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_day8"
],
"cell_fate_change_treatments": [
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],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
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],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 8 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM0608PJZS/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM0608PJZS",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_day12"
],
"cell_fate_change_treatments": [
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],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
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],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 12 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM9047XSAG/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM9047XSAG",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_day16"
],
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],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
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],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 16 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM9302LKGG/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM9302LKGG",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_day18"
],
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],
"classifications": [
"differentiated cell specimen"
],
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],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 18 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM3017QZLW/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM3017QZLW",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_day20"
],
"cell_fate_change_treatments": [
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],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
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],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 20 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM5495EAGK/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM5495EAGK",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_day0"
],
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"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
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],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM5929KNAA/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM5929KNAA",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_day6"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
"/construct-library-sets/IGVFDS7655GRFI/"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 4 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM7672WVIM/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM7672WVIM",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_day8"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
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],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 8 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM6856KISH/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM6856KISH",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_day12"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
"/construct-library-sets/IGVFDS7655GRFI/"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 12 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM4092RUKD/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM4092RUKD",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_day16"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
"/construct-library-sets/IGVFDS7655GRFI/"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 16 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM3379XAQN/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM3379XAQN",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_day18"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
"/construct-library-sets/IGVFDS7655GRFI/"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 18 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM1212IBIX/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM1212IBIX",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part2_bulk_day20"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
"/construct-library-sets/IGVFDS7655GRFI/"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 20 days, male, Mus musculus WD44 modified with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
}
],
"schema_version": "8",
"status": "released",
"submitted_by": {
"@id": "/users/73f58e9f-8f5d-4fee-a7cd-dd63c0167e4b/",
"title": "Beth Martin"
},
"submitted_files_timestamp": "2024-05-07T19:59:38.674958+00:00",
"summary": "principal analysis of MPRA data",
"uuid": "04893391-d7b4-467c-aa36-d750ac58d872"
}