IGVFFI3984YVBB

revoked
validated
1{
2    "@context": "/terms/",
3    "@id": "/matrix-files/IGVFFI3984YVBB/",
4    "@type": [
5        "MatrixFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI3984YVBB",
10    "aliases": [
11        "ali-mortazavi:IGVF_B01_Subpool_2_total+core"
12    ],
13    "analysis_step_version": "/analysis-step-versions/7575fac5-2297-495f-ad92-000d9acf05f6/",
14    "assay_titles": [
15        "Parse SPLiT-seq"
16    ],
17    "audit": {
18        "NOT_COMPLIANT": [
19            {
20                "category": "missing file format specifications",
21                "detail": "Matrix file [IGVFFI3984YVBB](/matrix-files/IGVFFI3984YVBB/) has no `file_format_specifications`. Matrix files are expected to link to a file format specifications document describing the axes and layers of the file.",
22                "level": 50,
23                "level_name": "NOT_COMPLIANT",
24                "name": "audit_file_no_file_format_specifications",
25                "path": "/matrix-files/IGVFFI3984YVBB/"
26            }
27        ]
28    },
29    "award": {
30        "@id": "/awards/HG012077/",
31        "component": "mapping"
32    },
33    "content_md5sum": "fe4499b4bfc4d1495aa2700934b21248",
34    "content_summary": "cell by gene in sparse gene count matrix",
35    "content_type": "sparse gene count matrix",
36    "creation_timestamp": "2024-09-03T23:38:35.018222+00:00",
37    "derived_from": [
38        "/sequence-files/IGVFFI0800JAPD/",
39        "/sequence-files/IGVFFI5241MPKQ/",
40        "/sequence-files/IGVFFI7173WSNG/",
41        "/sequence-files/IGVFFI8814HDVL/"
42    ],
43    "file_format": "tar",
44    "file_set": {
45        "@id": "/analysis-sets/IGVFDS7323SUVK/",
46        "@type": [
47            "AnalysisSet",
48            "FileSet",
49            "Item"
50        ],
51        "accession": "IGVFDS7323SUVK",
52        "file_set_type": "intermediate analysis",
53        "samples": [
54            {
55                "@id": "/multiplexed-samples/IGVFSM1955RVUC/",
56                "@type": [
57                    "MultiplexedSample",
58                    "Sample",
59                    "Item"
60                ],
61                "accession": "IGVFSM1955RVUC",
62                "classifications": [
63                    "tissue",
64                    "multiplexed sample"
65                ],
66                "disease_terms": [],
67                "modifications": [],
68                "sample_terms": [
69                    {
70                        "@id": "/sample-terms/NTR_0000646/",
71                        "status": "released",
72                        "term_name": "left cerebral cortex"
73                    }
74                ],
75                "status": "released",
76                "summary": "multiplexed sample: Mus musculus CAST/EiJ (female, 72 days) left cerebral cortex tissue; Mus musculus C57BL/6J (male, 72 days) left cerebral cortex tissue; ... and 6 more samples",
77                "taxa": "Mus musculus",
78                "treatments": []
79            }
80        ],
81        "status": "released",
82        "summary": "Parse SPLiT-seq: sparse gene count matrix"
83    },
84    "file_size": 403996214,
85    "gene_list_for": [],
86    "href": "/matrix-files/IGVFFI3984YVBB/@@download/IGVFFI3984YVBB.tar.gz",
87    "input_file_for": [],
88    "integrated_in": [],
89    "lab": {
90        "@id": "/labs/ali-mortazavi/",
91        "title": "Ali Mortazavi, UCI"
92    },
93    "loci_list_for": [],
94    "md5sum": "079fe8d7d7ed4d63718d05015f3ae709",
95    "principal_dimension": "cell",
96    "quality_metrics": [],
97    "reference_files": [
98        "/reference-files/IGVFFI9282QLXO/",
99        "/reference-files/IGVFFI9744VSJF/"
100    ],
101    "release_timestamp": "2024-09-05T18:27:41.192151+00:00",
102    "revoke_detail": "This file was revoked due its manifest file containing the incorrect accessions and has been replaced with ali-mortazavi:IGVF_B01_Subpool_2_total+core_replacement.",
103    "s3_uri": "s3://igvf-files/2024/09/03/110ee50e-1efc-412c-920d-a3b87a10fe39/IGVFFI3984YVBB.tar.gz",
104    "schema_version": "7",
105    "secondary_dimensions": [
106        "gene"
107    ],
108    "status": "revoked",
109    "submitted_by": {
110        "@id": "/users/ebd1025b-e3ab-4e51-bfcd-1415f278281a/",
111        "title": "Diane Trout"
112    },
113    "submitted_file_name": "IGVF_B01_Subpool_2_total+core.tar.gz",
114    "summary": "cell by gene in sparse gene count matrix",
115    "upload_status": "validated",
116    "uuid": "110ee50e-1efc-412c-920d-a3b87a10fe39",
117    "workflow": {
118        "@id": "/workflows/IGVFWF6241JYDF/",
119        "name": "UCI snRNA-seq workflow"
120    }
121}