IGVFDS8565TJGH

1{
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10    "aliases": [
11        "igvf:corces_measurementSet_RP022_G3_RNA"
12    ],
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15        "assay_slims": [
16            "gene expression"
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18        "status": "released",
19        "term_name": "single-nucleus RNA sequencing assay"
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703            {
704                "category": "mismatched status",
705                "detail": "Preview human donor [IGVFDO0967LMSM](/human-donors/IGVFDO0967LMSM/) has in progress subobject phenotypic feature [76d1545b-cd78-4f5a-a2ad-ee965a0866c1](/phenotypic-features/76d1545b-cd78-4f5a-a2ad-ee965a0866c1/).",
706                "level": 30,
707                "level_name": "INTERNAL_ACTION",
708                "name": "audit_item_status",
709                "path": "/human-donors/IGVFDO0967LMSM/"
710            },
711            {
712                "category": "mismatched status",
713                "detail": "Preview human donor [IGVFDO0967LMSM](/human-donors/IGVFDO0967LMSM/) has in progress subobject phenotypic feature [c5e31c41-b085-41c2-9f97-8b16d3d79237](/phenotypic-features/c5e31c41-b085-41c2-9f97-8b16d3d79237/).",
714                "level": 30,
715                "level_name": "INTERNAL_ACTION",
716                "name": "audit_item_status",
717                "path": "/human-donors/IGVFDO0967LMSM/"
718            },
719            {
720                "category": "mismatched status",
721                "detail": "Preview human donor [IGVFDO0967LMSM](/human-donors/IGVFDO0967LMSM/) has in progress subobject phenotypic feature [36fe54cd-7d3e-4900-b3c1-c60664f4a3d8](/phenotypic-features/36fe54cd-7d3e-4900-b3c1-c60664f4a3d8/).",
722                "level": 30,
723                "level_name": "INTERNAL_ACTION",
724                "name": "audit_item_status",
725                "path": "/human-donors/IGVFDO0967LMSM/"
726            }
727        ],
728        "NOT_COMPLIANT": [
729            {
730                "category": "missing sequence specification",
731                "detail": "Measurement set [IGVFDS8565TJGH](/measurement-sets/IGVFDS8565TJGH/) has sequence file(s): [IGVFFI1212SUPO](/sequence-files/IGVFFI1212SUPO/), [IGVFFI6370JYCN](/sequence-files/IGVFFI6370JYCN/), [IGVFFI6802XJSQ](/sequence-files/IGVFFI6802XJSQ/), [IGVFFI2597GLXN](/sequence-files/IGVFFI2597GLXN/), [IGVFFI7497XOPC](/sequence-files/IGVFFI7497XOPC/), [IGVFFI2498WHQF](/sequence-files/IGVFFI2498WHQF/), [IGVFFI7995PWBK](/sequence-files/IGVFFI7995PWBK/), [IGVFFI0116PZXG](/sequence-files/IGVFFI0116PZXG/), [IGVFFI1922IAFK](/sequence-files/IGVFFI1922IAFK/), [IGVFFI5617FJOZ](/sequence-files/IGVFFI5617FJOZ/), [IGVFFI8892IZMW](/sequence-files/IGVFFI8892IZMW/), [IGVFFI2919VUHP](/sequence-files/IGVFFI2919VUHP/), [IGVFFI3280LYWO](/sequence-files/IGVFFI3280LYWO/), [IGVFFI7425NMYQ](/sequence-files/IGVFFI7425NMYQ/), [IGVFFI4103SOGA](/sequence-files/IGVFFI4103SOGA/), [IGVFFI1032AZYC](/sequence-files/IGVFFI1032AZYC/) 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.",
732                "level": 50,
733                "level_name": "NOT_COMPLIANT",
734                "name": "audit_missing_seqspec",
735                "path": "/measurement-sets/IGVFDS8565TJGH/"
736            },
737            {
738                "category": "missing strand specificity",
739                "detail": "Measurement set [IGVFDS8565TJGH](/measurement-sets/IGVFDS8565TJGH/) is missing required `strand_specificity`. Single-cell assays are expected to specify strand specificity.",
740                "level": 50,
741                "level_name": "NOT_COMPLIANT",
742                "name": "audit_missing_strand_specificity",
743                "path": "/measurement-sets/IGVFDS8565TJGH/"
744            }
745        ],
746        "WARNING": [
747            {
748                "category": "missing analysis",
749                "detail": "Measurement set [IGVFDS8565TJGH](/measurement-sets/IGVFDS8565TJGH/) 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.",
750                "level": 40,
751                "level_name": "WARNING",
752                "name": "audit_input_for",
753                "path": "/measurement-sets/IGVFDS8565TJGH/"
754            }
755        ]
756    },
757    "award": {
758        "@id": "/awards/HG012076/",
759        "component": "mapping",
760        "contact_pi": {
761            "@id": "/users/eae4c275-1e07-45e4-ae67-3e437a8680bb/",
762            "title": "Ansuman Satpathy"
763        },
764        "title": "Single-cell Mapping Center for Human Regulatory Elements and Gene Activity"
765    },
766    "control_for": [],
767    "controlled_access": false,
768    "creation_timestamp": "2025-03-19T21:44:15.098435+00:00",
769    "data_use_limitation_summaries": [
770        "No limitations"
771    ],
772    "donors": [
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774            "@id": "/human-donors/IGVFDO7186XJLL/",
775            "accession": "IGVFDO7186XJLL",
776            "aliases": [
777                "igvf:corces_donor_BANN1639"
778            ],
779            "sex": "male",
780            "status": "preview",
781            "taxa": "Homo sapiens"
782        },
783        {
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785            "accession": "IGVFDO0909BNTN",
786            "aliases": [
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788            ],
789            "sex": "male",
790            "status": "preview",
791            "taxa": "Homo sapiens"
792        },
793        {
794            "@id": "/human-donors/IGVFDO4783EEYU/",
795            "accession": "IGVFDO4783EEYU",
796            "aliases": [
797                "igvf:corces_donor_BANN1865"
798            ],
799            "sex": "male",
800            "status": "preview",
801            "taxa": "Homo sapiens"
802        },
803        {
804            "@id": "/human-donors/IGVFDO4825ZGIS/",
805            "accession": "IGVFDO4825ZGIS",
806            "aliases": [
807                "igvf:corces_donor_BANN2057"
808            ],
809            "sex": "male",
810            "status": "preview",
811            "taxa": "Homo sapiens"
812        },
813        {
814            "@id": "/human-donors/IGVFDO2045AFUW/",
815            "accession": "IGVFDO2045AFUW",
816            "aliases": [
817                "igvf:corces_donor_BANN1404"
818            ],
819            "sex": "male",
820            "status": "preview",
821            "taxa": "Homo sapiens"
822        },
823        {
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825            "accession": "IGVFDO4103FHPT",
826            "aliases": [
827                "igvf:corces_donor_BANN9702"
828            ],
829            "sex": "male",
830            "status": "preview",
831            "taxa": "Homo sapiens"
832        },
833        {
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835            "accession": "IGVFDO8584FBOT",
836            "aliases": [
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838            ],
839            "sex": "male",
840            "status": "preview",
841            "taxa": "Homo sapiens"
842        },
843        {
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845            "accession": "IGVFDO8670MHXE",
846            "aliases": [
847                "igvf:corces_donor_BANN0874"
848            ],
849            "sex": "female",
850            "status": "preview",
851            "taxa": "Homo sapiens"
852        },
853        {
854            "@id": "/human-donors/IGVFDO4812DEVH/",
855            "accession": "IGVFDO4812DEVH",
856            "aliases": [
857                "igvf:corces_donor_BANN1833"
858            ],
859            "sex": "male",
860            "status": "preview",
861            "taxa": "Homo sapiens"
862        },
863        {
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865            "accession": "IGVFDO9236YUAT",
866            "aliases": [
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868            ],
869            "sex": "male",
870            "status": "preview",
871            "taxa": "Homo sapiens"
872        },
873        {
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875            "accession": "IGVFDO5194SXHC",
876            "aliases": [
877                "igvf:corces_donor_BANN1747"
878            ],
879            "sex": "male",
880            "status": "preview",
881            "taxa": "Homo sapiens"
882        },
883        {
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885            "accession": "IGVFDO9211DWXZ",
886            "aliases": [
887                "igvf:corces_donor_BANN1352"
888            ],
889            "sex": "female",
890            "status": "preview",
891            "taxa": "Homo sapiens"
892        },
893        {
894            "@id": "/human-donors/IGVFDO2848YHMH/",
895            "accession": "IGVFDO2848YHMH",
896            "aliases": [
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898            ],
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900            "status": "preview",
901            "taxa": "Homo sapiens"
902        },
903        {
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906            "aliases": [
907                "igvf:corces_donor_BANN2003"
908            ],
909            "sex": "male",
910            "status": "preview",
911            "taxa": "Homo sapiens"
912        },
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918            ],
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920            "status": "preview",
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923        {
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930            "status": "preview",
931            "taxa": "Homo sapiens"
932        }
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940            "aliases": [
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958        },
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967            "creation_timestamp": "2025-03-20T22:53:05.226336+00:00",
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978            "submitted_file_name": "Multiome_RNA_RP022_G3_L003_P068_S7_L003_R1_001.fastq.gz",
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987            "content_type": "reads",
988            "controlled_access": false,
989            "creation_timestamp": "2025-03-20T22:52:55.613998+00:00",
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994            "sequencing_platform": {
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996                "status": "released",
997                "term_name": "Illumina NovaSeq X"
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999            "status": "preview",
1000            "submitted_file_name": "Multiome_RNA_RP022_G3_L003_P068_S7_L002_R2_001.fastq.gz",
1001            "upload_status": "validated"
1002        },
1003        {
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1005            "accession": "IGVFFI2597GLXN",
1006            "aliases": [
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1010            "controlled_access": false,
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1019                "term_name": "Illumina NovaSeq X"
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1022            "submitted_file_name": "Multiome_RNA_RP022_G3_L003_P068_S7_L002_I1_001.fastq.gz",
1023            "upload_status": "validated"
1024        },
1025        {
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1028            "aliases": [
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1041                "term_name": "Illumina NovaSeq X"
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1044            "submitted_file_name": "Multiome_RNA_RP022_G3_L003_P068_S7_L003_I2_001.fastq.gz",
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1046        },
1047        {
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1049            "accession": "IGVFFI2498WHQF",
1050            "aliases": [
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1068        },
1069        {
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1071            "accession": "IGVFFI7995PWBK",
1072            "aliases": [
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1077            "creation_timestamp": "2025-03-20T22:53:18.838917+00:00",
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1082            "sequencing_platform": {
1083                "@id": "/platform-terms/EFO_0022840/",
1084                "status": "released",
1085                "term_name": "Illumina NovaSeq X"
1086            },
1087            "status": "preview",
1088            "submitted_file_name": "Multiome_RNA_RP022_G3_L003_P068_S7_L004_R1_001.fastq.gz",
1089            "upload_status": "validated"
1090        },
1091        {
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1093            "accession": "IGVFFI0116PZXG",
1094            "aliases": [
1095                "igvf:corces_sequenceFile_RNA_RP022_G3_P068_L001_I1"
1096            ],
1097            "content_type": "reads",
1098            "controlled_access": false,
1099            "creation_timestamp": "2025-03-20T22:52:35.167559+00:00",
1100            "file_format": "fastq",
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1104            "sequencing_platform": {
1105                "@id": "/platform-terms/EFO_0022840/",
1106                "status": "released",
1107                "term_name": "Illumina NovaSeq X"
1108            },
1109            "status": "preview",
1110            "submitted_file_name": "Multiome_RNA_RP022_G3_L003_P068_S7_L001_I1_001.fastq.gz",
1111            "upload_status": "validated"
1112        },
1113        {
1114            "@id": "/sequence-files/IGVFFI1922IAFK/",
1115            "accession": "IGVFFI1922IAFK",
1116            "aliases": [
1117                "igvf:corces_sequenceFile_RNA_RP022_G3_P068_L002_I2"
1118            ],
1119            "content_type": "reads",
1120            "controlled_access": false,
1121            "creation_timestamp": "2025-03-20T22:52:50.265808+00:00",
1122            "file_format": "fastq",
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1126            "sequencing_platform": {
1127                "@id": "/platform-terms/EFO_0022840/",
1128                "status": "released",
1129                "term_name": "Illumina NovaSeq X"
1130            },
1131            "status": "preview",
1132            "submitted_file_name": "Multiome_RNA_RP022_G3_L003_P068_S7_L002_I2_001.fastq.gz",
1133            "upload_status": "validated"
1134        },
1135        {
1136            "@id": "/sequence-files/IGVFFI5617FJOZ/",
1137            "accession": "IGVFFI5617FJOZ",
1138            "aliases": [
1139                "igvf:corces_sequenceFile_RNA_RP022_G3_P068_L001_I2"
1140            ],
1141            "content_type": "reads",
1142            "controlled_access": false,
1143            "creation_timestamp": "2025-03-20T22:52:38.111761+00:00",
1144            "file_format": "fastq",
1145            "file_size": 324618282,
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1148            "sequencing_platform": {
1149                "@id": "/platform-terms/EFO_0022840/",
1150                "status": "released",
1151                "term_name": "Illumina NovaSeq X"
1152            },
1153            "status": "preview",
1154            "submitted_file_name": "Multiome_RNA_RP022_G3_L003_P068_S7_L001_I2_001.fastq.gz",
1155            "upload_status": "validated"
1156        },
1157        {
1158            "@id": "/sequence-files/IGVFFI8892IZMW/",
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1293        "title": "Ryan Corces, Gladstone Institute UCSF"
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1296    "onlist_files": [
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1298    ],
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1300    "preferred_assay_title": "10x multiome",
1301    "protocols": [
1302        "https://www.protocols.io/view/chromium-next-gem-single-cell-multiome-atac-gene-e-d5k784zn"
1303    ],
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1312        {
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1314            "@type": [
1315                "MultiplexedSample",
1316                "Sample",
1317                "Item"
1318            ],
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1320            "aliases": [
1321                "igvf:corces_multiplexedSample_RP022_G3"
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1332                },
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1337                },
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1356                    "@type": [
1357                        "SampleTerm",
1358                        "OntologyTerm",
1359                        "Item"
1360                    ],
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1364                },
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1367                    "@type": [
1368                        "SampleTerm",
1369                        "OntologyTerm",
1370                        "Item"
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1375                },
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1378                    "@type": [
1379                        "SampleTerm",
1380                        "OntologyTerm",
1381                        "Item"
1382                    ],
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1384                    "summary": "cerebellar cortex",
1385                    "term_name": "cerebellar cortex"
1386                },
1387                {
1388                    "@id": "/sample-terms/UBERON_0002740/",
1389                    "@type": [
1390                        "SampleTerm",
1391                        "OntologyTerm",
1392                        "Item"
1393                    ],
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1396                    "term_name": "posterior cingulate gyrus"
1397                },
1398                {
1399                    "@id": "/sample-terms/UBERON_0002771/",
1400                    "@type": [
1401                        "SampleTerm",
1402                        "OntologyTerm",
1403                        "Item"
1404                    ],
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1409            ],
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1412            "taxa": "Homo sapiens",
1413            "treatments": []
1414        }
1415    ],
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1420        "title": "Ryan Corces"
1421    },
1422    "submitted_files_timestamp": "2025-03-20T22:52:35.167559+00:00",
1423    "summary": "single-nucleus RNA sequencing assay (10x multiome)",
1424    "uuid": "77c266d1-ab48-42a5-badc-4feb6765d3f6"
1425}