IGVFFI3226VPNC

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/alignment-files/IGVFFI3226VPNC/",
4    "@type": [
5        "AlignmentFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI3226VPNC",
10    "aliases": [
11        "tim-reddy:starr-seq-rna-bam-personal-genome-P007"
12    ],
13    "analysis_step_version": "/analysis-step-versions/13a525ab-87f3-4e73-a405-0f7a41c043de/",
14    "assay_titles": [
15        "SUPERSTARR"
16    ],
17    "assembly": "custom",
18    "audit": {},
19    "award": {
20        "@id": "/awards/HG012053/",
21        "component": "functional characterization"
22    },
23    "checkfiles_version": "v14",
24    "content_md5sum": "7f1b68b13d9c868ce1a74835b8c706e5",
25    "content_summary": "unfiltered alignments",
26    "content_type": "alignments",
27    "controlled_access": false,
28    "creation_timestamp": "2025-02-06T16:25:41.825495+00:00",
29    "derived_from": [
30        "/sequence-files/IGVFFI4475SCUA/",
31        "/sequence-files/IGVFFI3845WLSQ/"
32    ],
33    "file_format": "bam",
34    "file_set": {
35        "@id": "/analysis-sets/IGVFDS3299RYZX/",
36        "@type": [
37            "AnalysisSet",
38            "FileSet",
39            "Item"
40        ],
41        "accession": "IGVFDS3299RYZX",
42        "file_set_type": "principal analysis",
43        "samples": [
44            {
45                "@id": "/in-vitro-systems/IGVFSM5388RGJI/",
46                "@type": [
47                    "InVitroSystem",
48                    "Biosample",
49                    "Sample",
50                    "Item"
51                ],
52                "accession": "IGVFSM5388RGJI",
53                "classifications": [
54                    "cell line"
55                ],
56                "sample_terms": [
57                    {
58                        "@id": "/sample-terms/EFO_0002067/",
59                        "status": "released",
60                        "term_name": "K562"
61                    }
62                ],
63                "status": "released",
64                "summary": "Homo sapiens (female) K562 cell line transfected with a reporter library",
65                "taxa": "Homo sapiens"
66            }
67        ],
68        "status": "released",
69        "summary": "SUPERSTARR: alignments, index, reporter genomic variant effects, reporter variants"
70    },
71    "file_size": 13598487766,
72    "filtered": false,
73    "gene_list_for": [],
74    "href": "/alignment-files/IGVFFI3226VPNC/@@download/IGVFFI3226VPNC.bam",
75    "input_file_for": [
76        "/tabular-files/IGVFFI5638XJHN/",
77        "/index-files/IGVFFI2989NSJB/"
78    ],
79    "integrated_in": [],
80    "lab": {
81        "@id": "/labs/tim-reddy/",
82        "title": "Tim Reddy, Duke"
83    },
84    "loci_list_for": [],
85    "md5sum": "d233852c6ed8b43976ba47ee3305ecb8",
86    "quality_metrics": [],
87    "read_count": 201378526,
88    "redacted": false,
89    "reference_files": [
90        "/reference-files/IGVFFI0330XSFM/"
91    ],
92    "release_timestamp": "2025-04-09T16:40:13.880108+00:00",
93    "s3_uri": "s3://igvf-files/2025/02/06/f496a578-86ce-4146-b31f-3d160a58025c/IGVFFI3226VPNC.bam",
94    "schema_version": "14",
95    "status": "released",
96    "submitted_by": {
97        "@id": "/users/29f5f78d-ac90-421e-90c6-a90e1dc407a7/",
98        "title": "Alejandro Barrera"
99    },
100    "submitted_file_name": "/data/reddylab/Alex/IGVF/data_submissions/processed_data/AIM_1_STARR_seq/K562.starrseq.rna.pool7.personal_genome.sorted.bam",
101    "summary": "custom assembly unfiltered alignments",
102    "upload_status": "validated",
103    "uuid": "f496a578-86ce-4146-b31f-3d160a58025c",
104    "workflow": {
105        "@id": "/workflows/IGVFWF6957ZNII/",
106        "name": "SUPERSTARR Pipeline",
107        "uniform_pipeline": false
108    }
109}