IGVFFI4777RDZK

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/reference-files/IGVFFI4777RDZK/",
4    "@type": [
5        "ReferenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI4777RDZK",
10    "assay_titles": [],
11    "audit": {
12        "INTERNAL_ACTION": [
13            {
14                "category": "mismatched status",
15                "detail": "Released reference file [IGVFFI4777RDZK](/reference-files/IGVFFI4777RDZK/) has in progress subobject document [7143685b-1a3c-4d28-9b74-21458790ecad](/documents/7143685b-1a3c-4d28-9b74-21458790ecad/).",
16                "level": 30,
17                "level_name": "INTERNAL_ACTION",
18                "name": "audit_item_status",
19                "path": "/reference-files/IGVFFI4777RDZK/"
20            }
21        ]
22    },
23    "award": {
24        "@id": "/awards/Community/"
25    },
26    "checkfiles_version": "v19",
27    "content_md5sum": "8363a4927969f31ac0a0a0a2fb8ddb76",
28    "content_type": "transcriptome reference",
29    "controlled_access": false,
30    "creation_timestamp": "2025-03-17T23:05:33.583037+00:00",
31    "derived_from": [
32        "/reference-files/IGVFFI5842FWGQ/"
33    ],
34    "documents": [
35        "/documents/7143685b-1a3c-4d28-9b74-21458790ecad/"
36    ],
37    "external": false,
38    "file_format": "gtf",
39    "file_set": {
40        "@id": "/curated-sets/IGVFDS5798ODGM/",
41        "@type": [
42            "CuratedSet",
43            "FileSet",
44            "Item"
45        ],
46        "accession": "IGVFDS5798ODGM",
47        "file_set_type": "genome",
48        "status": "released",
49        "summary": "Mus musculus GENCODE M36 genome",
50        "taxa": "Mus musculus"
51    },
52    "file_size": 39833956,
53    "gene_list_for": [],
54    "href": "/reference-files/IGVFFI4777RDZK/@@download/IGVFFI4777RDZK.gtf.gz",
55    "input_file_for": [
56        "/reference-files/IGVFFI3914NGGD/",
57        "/reference-files/IGVFFI4511ZQXQ/",
58        "/reference-files/IGVFFI5078MNED/"
59    ],
60    "integrated_in": [],
61    "lab": {
62        "@id": "/labs/community/",
63        "title": "External Lab, Community"
64    },
65    "loci_list_for": [],
66    "md5sum": "d7bc72665d30a618e43ff1bfd798b682",
67    "notes": "Generated using https://github.com/IGVF/atomic-workflows/blob/main/src/notebooks/convert_gtf_chromosome_names.py",
68    "quality_metrics": [],
69    "release_timestamp": "2025-03-31T16:58:58.944377+00:00",
70    "s3_uri": "s3://igvf-files/2025/03/17/0ab02196-d7fe-464f-b159-8a553f49df94/IGVFFI4777RDZK.gtf.gz",
71    "schema_version": "18",
72    "status": "released",
73    "submitted_by": {
74        "@id": "/users/6bae687f-b77a-46b9-af0e-a02c135cf42e/",
75        "title": "Meenakshi Kagda"
76    },
77    "submitted_file_name": "IGVFFI5842FWGQ_updated_chromosome_names.gtf.gz",
78    "submitter_comment": "This file was generated using the script https://github.com/IGVF/atomic-workflows/blob/main/src/notebooks/convert_gtf_chromosome_names.py from IGVFFI5842FWGQ. The notebook contains all the steps necessary to convert the chromosome names in gencode gtf file to ucsc-style chromosome names, as used in genome reference fasta file",
79    "summary": "GENCODE M36 transcriptome reference",
80    "transcriptome_annotation": "GENCODE M36",
81    "upload_status": "validated",
82    "uuid": "0ab02196-d7fe-464f-b159-8a553f49df94"
83}