IGVFFI5180HSIX

released
validation exempted
1{
2    "@context": "/terms/",
3    "@id": "/tabular-files/IGVFFI5180HSIX/",
4    "@type": [
5        "TabularFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI5180HSIX",
10    "aliases": [
11        "ansuman-satpathy:igvf9_peaks_10x2"
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": "0940b61663ef5c797a132f1bc458a96d",
26    "content_type": "peaks",
27    "controlled_access": true,
28    "creation_timestamp": "2025-01-28T06:03:06.084484+00:00",
29    "derived_from": [
30        "/tabular-files/IGVFFI4907GYFZ/"
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/IGVFDS6435ALNY/",
39        "accession": "IGVFDS6435ALNY",
40        "file_set_type": "intermediate analysis",
41        "samples": [
42            {
43                "@id": "/multiplexed-samples/IGVFSM2512OHNK/",
44                "accession": "IGVFSM2512OHNK",
45                "classifications": [
46                    "differentiated cell specimen",
47                    "multiplexed sample"
48                ],
49                "disease_terms": [],
50                "modifications": [],
51                "sample_terms": [
52                    {
53                        "@id": "/sample-terms/CL_0000236/",
54                        "status": "released",
55                        "term_name": "B cell"
56                    }
57                ],
58                "status": "released",
59                "summary": "multiplexed sample: Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 1 day; Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 5 days; ... and 5 more samples",
60                "taxa": "Homo sapiens",
61                "treatments": []
62            }
63        ],
64        "status": "released",
65        "summary": "10x multiome with MULTI-seq: cell hashing barcodes, fragments, index, peaks, raw feature barcode matrix"
66    },
67    "file_size": 1697553,
68    "gene_list_for": [],
69    "href": "/tabular-files/IGVFFI5180HSIX/@@download/IGVFFI5180HSIX.bed.gz",
70    "input_file_for": [],
71    "integrated_in": [],
72    "lab": {
73        "@id": "/labs/ansuman-satpathy/",
74        "title": "Ansuman Satpathy, Stanford"
75    },
76    "loci_list_for": [],
77    "md5sum": "5412f5fe0db774d833a05404accf13be",
78    "quality_metrics": [],
79    "release_timestamp": "2025-03-22T00:42:51.294864+00:00",
80    "s3_uri": "s3://igvf-restricted-files/2025/01/28/90f7efe5-1432-497f-afdd-cde6f09180ca/IGVFFI5180HSIX.bed.gz",
81    "schema_version": "15",
82    "status": "released",
83    "submitted_by": {
84        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
85        "title": "Christopher Mcginnis"
86    },
87    "submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/analysis_sets/igvf9/e9l2_peaks.bed",
88    "summary": "GRCh38 peaks",
89    "upload_status": "validation exempted",
90    "uuid": "90f7efe5-1432-497f-afdd-cde6f09180ca",
91    "validation_error_detail": "{\"md5sum\": \"original md5sum 0940b61663ef5c797a132f1bc458a96d does not match newly calculated md5sum 5412f5fe0db774d833a05404accf13be.\", \"validate_files\": \"Error [file=/home/ubuntu/igvf-restricted-files/2025/01/28/90f7efe5-1432-497f-afdd-cde6f09180ca/IGVFFI5180HSIX.bed.gz, line=206547]: chrom KI270728.1 not found [KI270728.1\\t232273\\t233175]\\nAborting ... found error.\"}",
92    "workflow": {
93        "@id": "/workflows/IGVFWF1453HVEC/",
94        "name": "Satpathy Cell Ranger",
95        "uniform_pipeline": false
96    }
97}