IGVFFI6914SBPN

1{
2    "@context": "/terms/",
3    "@id": "/tabular-files/IGVFFI6914SBPN/",
4    "@type": [
5        "TabularFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI6914SBPN",
10    "aliases": [
11        "buenrostro-bernstein:IGVFDS4769QTGM_fragments"
12    ],
13    "analysis_step_version": "/analysis-step-versions/39c0498d-91f6-42de-8896-2fab1403f032/",
14    "assay_titles": [
15        "SHARE-seq"
16    ],
17    "assembly": "GRCm39",
18    "audit": {},
19    "award": {
20        "@id": "/awards/HG011986/",
21        "component": "mapping"
22    },
23    "barcode_map_for": [],
24    "checkfiles_version": "v20",
25    "content_md5sum": "5b1afc01f8203c1658fca0bf52b08a13",
26    "content_type": "fragments",
27    "controlled_access": false,
28    "creation_timestamp": "2025-03-27T01:18:16.514140+00:00",
29    "derived_from": [
30        "/sequence-files/IGVFFI9201WYHO/",
31        "/sequence-files/IGVFFI0137ERGS/",
32        "/sequence-files/IGVFFI7270DMRN/",
33        "/sequence-files/IGVFFI0086MOYB/",
34        "/sequence-files/IGVFFI3794YMRL/",
35        "/sequence-files/IGVFFI4498HQPP/",
36        "/sequence-files/IGVFFI9305UBWA/",
37        "/sequence-files/IGVFFI3119TNSE/",
38        "/sequence-files/IGVFFI7385RIWV/",
39        "/sequence-files/IGVFFI0043UUDP/",
40        "/sequence-files/IGVFFI2302SLNH/",
41        "/sequence-files/IGVFFI1728ECQN/",
42        "/configuration-files/IGVFFI5361AABQ/",
43        "/configuration-files/IGVFFI0846TMYA/",
44        "/configuration-files/IGVFFI3071NXZT/",
45        "/configuration-files/IGVFFI6768ERPY/",
46        "/configuration-files/IGVFFI8541ZMMO/",
47        "/configuration-files/IGVFFI8780JHZV/"
48    ],
49    "file_format": "bed",
50    "file_format_specifications": [
51        {
52            "@id": "/documents/db2a6dd0-cc1d-439e-a610-f9f1d04cfd82/",
53            "description": "Specification of fragment file generated by https://github.com/IGVF/single-cell-pipeline"
54        }
55    ],
56    "file_format_type": "bed3+",
57    "file_set": {
58        "@id": "/analysis-sets/IGVFDS4769QTGM/",
59        "@type": [
60            "AnalysisSet",
61            "FileSet",
62            "Item"
63        ],
64        "accession": "IGVFDS4769QTGM",
65        "data_use_limitation_summaries": [
66            "no certificate"
67        ],
68        "file_set_type": "intermediate analysis",
69        "samples": [
70            {
71                "@id": "/tissues/IGVFSM8883WYCA/",
72                "@type": [
73                    "Tissue",
74                    "Biosample",
75                    "Sample",
76                    "Item"
77                ],
78                "accession": "IGVFSM8883WYCA",
79                "classifications": [
80                    "tissue"
81                ],
82                "sample_terms": [
83                    {
84                        "@id": "/sample-terms/UBERON_0000955/",
85                        "status": "released",
86                        "term_name": "brain"
87                    }
88                ],
89                "status": "released",
90                "summary": "Mus musculus C57BL/6 (female) brain tissue (cellular sub pool: SS-PKR 132)",
91                "taxa": "Mus musculus"
92            }
93        ],
94        "status": "released",
95        "summary": "single-cell ATAC-seq (SHARE-seq), single-cell RNA sequencing assay (SHARE-seq)"
96    },
97    "file_size": 845479534,
98    "filtered": false,
99    "gene_list_for": [],
100    "href": "/tabular-files/IGVFFI6914SBPN/@@download/IGVFFI6914SBPN.bed.gz",
101    "input_file_for": [
102        "/index-files/IGVFFI0917ETKY/"
103    ],
104    "integrated_in": [],
105    "lab": {
106        "@id": "/labs/jason-buenrostro/",
107        "title": "Jason Buenrostro, Broad"
108    },
109    "loci_list_for": [],
110    "md5sum": "bca285b25bdd46360508aec5025606ea",
111    "primer_design_for": [],
112    "quality_metrics": [
113        "/single-cell-atac-seq-quality-metrics/0f5e0ae5-c26e-47c6-bf59-7f93b0e23008/"
114    ],
115    "release_timestamp": "2025-05-07T20:35:01.759349+00:00",
116    "s3_uri": "s3://igvf-files/2025/03/27/8345faa8-5876-4c04-9854-60c7b99684c9/IGVFFI6914SBPN.bed.gz",
117    "schema_version": "15",
118    "status": "released",
119    "submitted_by": {
120        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
121        "title": "Siddarth Wekhande"
122    },
123    "submitted_file_name": "gs://fc-9649faf8-a4ec-4ca4-a975-498a1707d03c/submissions/a6d4a8e2-651e-421f-ae34-bfdf4cf1f42e/single_cell_pipeline/e5388b35-8930-49ab-a59f-e57e72b28278/call-atac/wf_atac/60c7c6a3-129f-4fff-90da-9ddb46c5b409/call-generate_fragments/SS-PKR-132.fragments.tsv.gz",
124    "summary": "GRCm39 unfiltered fragments",
125    "upload_status": "validated",
126    "uuid": "8345faa8-5876-4c04-9854-60c7b99684c9",
127    "workflow": {
128        "@id": "/workflows/IGVFWF7365VWQV/",
129        "name": "igvf single cell uniform pipeline",
130        "uniform_pipeline": true
131    }
132}