IGVFFI9314CWMG

released
validation exempted
1{
2    "@context": "/terms/",
3    "@id": "/tabular-files/IGVFFI9314CWMG/",
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6        "File",
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9    "accession": "IGVFFI9314CWMG",
10    "aliases": [
11        "ansuman-satpathy:igvf12_peaks_10x4"
12    ],
13    "analysis_step_version": "/analysis-step-versions/699d6738-4033-4afc-b6f3-1d82a80e0b41/",
14    "assay_titles": [
15        "10x multiome with MULTI-seq"
16    ],
17    "assembly": "GRCh38",
18    "audit": {},
19    "award": {
20        "@id": "/awards/HG011972/",
21        "component": "functional characterization"
22    },
23    "barcode_map_for": [],
24    "checkfiles_version": "v14",
25    "content_md5sum": "507ff3c2c7b1f4eb8fb89ab7bee257c5",
26    "content_type": "peaks",
27    "controlled_access": true,
28    "creation_timestamp": "2025-01-28T06:16:09.611956+00:00",
29    "derived_from": [
30        "/tabular-files/IGVFFI7457JZZA/"
31    ],
32    "file_format": "bed",
33    "file_format_specifications": [
34        "/documents/07404908-2ed4-4286-8345-97e0fc205b36/"
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36    "file_format_type": "bed3",
37    "file_set": {
38        "@id": "/analysis-sets/IGVFDS4731QGJR/",
39        "@type": [
40            "AnalysisSet",
41            "FileSet",
42            "Item"
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44        "accession": "IGVFDS4731QGJR",
45        "file_set_type": "intermediate analysis",
46        "samples": [
47            {
48                "@id": "/multiplexed-samples/IGVFSM3762JDVU/",
49                "@type": [
50                    "MultiplexedSample",
51                    "Sample",
52                    "Item"
53                ],
54                "accession": "IGVFSM3762JDVU",
55                "classifications": [
56                    "differentiated cell specimen",
57                    "tissue",
58                    "multiplexed sample"
59                ],
60                "disease_terms": [],
61                "modifications": [],
62                "sample_terms": [
63                    {
64                        "@id": "/sample-terms/CL_0000236/",
65                        "status": "released",
66                        "term_name": "B cell"
67                    },
68                    {
69                        "@id": "/sample-terms/UBERON_0002371/",
70                        "status": "released",
71                        "term_name": "bone marrow"
72                    }
73                ],
74                "status": "released",
75                "summary": "multiplexed sample: Homo sapiens (female) B differentiated cell specimen induced to plasmablast for 6 days; Homo sapiens (female) B differentiated cell specimen induced to plasmablast for 5 days; ... and 10 more samples",
76                "taxa": "Homo sapiens",
77                "treatments": []
78            }
79        ],
80        "status": "released",
81        "summary": "10x multiome with MULTI-seq: cell hashing barcodes, fragments, index, peaks, raw feature barcode matrix"
82    },
83    "file_size": 1253885,
84    "gene_list_for": [],
85    "href": "/tabular-files/IGVFFI9314CWMG/@@download/IGVFFI9314CWMG.bed.gz",
86    "input_file_for": [],
87    "integrated_in": [],
88    "lab": {
89        "@id": "/labs/ansuman-satpathy/",
90        "title": "Ansuman Satpathy, Stanford"
91    },
92    "loci_list_for": [],
93    "md5sum": "d76acd9bdabb9804b50efa1aa3d95bb3",
94    "quality_metrics": [],
95    "release_timestamp": "2025-03-22T00:43:29.056904+00:00",
96    "s3_uri": "s3://igvf-restricted-files/2025/01/28/2ce5ae45-3d99-433d-99c6-f1f3c044dd82/IGVFFI9314CWMG.bed.gz",
97    "schema_version": "15",
98    "status": "released",
99    "submitted_by": {
100        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
101        "title": "Christopher Mcginnis"
102    },
103    "submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/analysis_sets/igvf12/e12l4_peaks.bed",
104    "summary": "GRCh38 peaks",
105    "upload_status": "validation exempted",
106    "uuid": "2ce5ae45-3d99-433d-99c6-f1f3c044dd82",
107    "validation_error_detail": "{\"md5sum\": \"original md5sum 507ff3c2c7b1f4eb8fb89ab7bee257c5 does not match newly calculated md5sum d76acd9bdabb9804b50efa1aa3d95bb3.\", \"validate_files\": \"Error [file=/home/ubuntu/igvf-restricted-files/2025/01/28/2ce5ae45-3d99-433d-99c6-f1f3c044dd82/IGVFFI9314CWMG.bed.gz, line=151304]: chrom KI270728.1 not found [KI270728.1\\t232281\\t233178]\\nAborting ... found error.\"}",
108    "workflow": {
109        "@id": "/workflows/IGVFWF1453HVEC/",
110        "name": "Satpathy Cell Ranger",
111        "uniform_pipeline": false
112    }
113}