IGVFFI9915DZYL

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/alignment-files/IGVFFI9915DZYL/",
4    "@type": [
5        "AlignmentFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI9915DZYL",
10    "aliases": [
11        "tim-reddy:starr-seq-dna-bam-k562-P013"
12    ],
13    "analysis_step_version": "/analysis-step-versions/cfaab400-714a-45b5-9800-3ff6f9c929c2/",
14    "assay_titles": [
15        "SUPERSTARR"
16    ],
17    "assembly": "GRCh38",
18    "audit": {},
19    "award": {
20        "@id": "/awards/HG012053/",
21        "component": "functional characterization"
22    },
23    "checkfiles_version": "v14",
24    "content_md5sum": "a92027c757129839a7452e3fbea874a5",
25    "content_summary": "unfiltered alignments",
26    "content_type": "alignments",
27    "controlled_access": false,
28    "creation_timestamp": "2025-02-06T14:26:51.063429+00:00",
29    "derived_from": [
30        "/sequence-files/IGVFFI1254YUWX/",
31        "/sequence-files/IGVFFI1477YFVT/"
32    ],
33    "file_format": "bam",
34    "file_set": {
35        "@id": "/analysis-sets/IGVFDS5833SGWM/",
36        "@type": [
37            "AnalysisSet",
38            "FileSet",
39            "Item"
40        ],
41        "accession": "IGVFDS5833SGWM",
42        "file_set_type": "principal analysis",
43        "samples": [
44            {
45                "@id": "/in-vitro-systems/IGVFSM3448XLHJ/",
46                "@type": [
47                    "InVitroSystem",
48                    "Biosample",
49                    "Sample",
50                    "Item"
51                ],
52                "accession": "IGVFSM3448XLHJ",
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": 6502234669,
72    "filtered": false,
73    "gene_list_for": [],
74    "href": "/alignment-files/IGVFFI9915DZYL/@@download/IGVFFI9915DZYL.bam",
75    "input_file_for": [
76        "/index-files/IGVFFI1887EFIU/"
77    ],
78    "integrated_in": [],
79    "lab": {
80        "@id": "/labs/tim-reddy/",
81        "title": "Tim Reddy, Duke"
82    },
83    "loci_list_for": [],
84    "md5sum": "2053d5c16df15d3f8a7fca6506f7bfa7",
85    "quality_metrics": [],
86    "read_count": 70171108,
87    "redacted": false,
88    "reference_files": [
89        "/reference-files/IGVFFI0653VCGH/"
90    ],
91    "release_timestamp": "2025-04-09T16:39:55.471015+00:00",
92    "s3_uri": "s3://igvf-files/2025/02/06/340b72f0-e114-4863-a0e8-d7d709402175/IGVFFI9915DZYL.bam",
93    "schema_version": "14",
94    "status": "released",
95    "submitted_by": {
96        "@id": "/users/29f5f78d-ac90-421e-90c6-a90e1dc407a7/",
97        "title": "Alejandro Barrera"
98    },
99    "submitted_file_name": "/data/reddylab/Alex/IGVF/data_submissions/processed_data/AIM_1_STARR_seq/K562.starrseq.dna.pool13.f3q10.sorted.dups_marked.bam",
100    "summary": "GRCh38 unfiltered alignments",
101    "upload_status": "validated",
102    "uuid": "340b72f0-e114-4863-a0e8-d7d709402175",
103    "workflow": {
104        "@id": "/workflows/IGVFWF6957ZNII/",
105        "name": "SUPERSTARR Pipeline",
106        "uniform_pipeline": false
107    }
108}