IGVFFI0876EPIM

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/alignment-files/IGVFFI0876EPIM/",
4    "@type": [
5        "AlignmentFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI0876EPIM",
10    "aliases": [
11        "buenrostro-bernstein:IGVFDS0635KHHW_bam"
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    "checkfiles_version": "v20",
24    "content_md5sum": "2eee59bdf8bcc7a3b70aedf84342f8c0",
25    "content_summary": "unfiltered alignments",
26    "content_type": "alignments",
27    "controlled_access": false,
28    "creation_timestamp": "2025-03-27T01:05:41.267224+00:00",
29    "derived_from": [
30        "/sequence-files/IGVFFI7508PACU/",
31        "/sequence-files/IGVFFI2472BMSD/",
32        "/sequence-files/IGVFFI2829RADG/",
33        "/sequence-files/IGVFFI4706YQDR/",
34        "/sequence-files/IGVFFI2975AWSJ/",
35        "/sequence-files/IGVFFI1001KYTA/",
36        "/sequence-files/IGVFFI4386BDER/",
37        "/sequence-files/IGVFFI4385PBLT/",
38        "/sequence-files/IGVFFI9352PGPF/",
39        "/sequence-files/IGVFFI9343KESJ/",
40        "/sequence-files/IGVFFI6665GUBQ/",
41        "/sequence-files/IGVFFI4364SHWE/",
42        "/configuration-files/IGVFFI2356MCSL/",
43        "/configuration-files/IGVFFI1054JKKD/",
44        "/configuration-files/IGVFFI9756RDEZ/",
45        "/configuration-files/IGVFFI4215EIYQ/",
46        "/configuration-files/IGVFFI5892NIPL/",
47        "/configuration-files/IGVFFI3943XKRN/"
48    ],
49    "file_format": "bam",
50    "file_set": {
51        "@id": "/analysis-sets/IGVFDS0635KHHW/",
52        "@type": [
53            "AnalysisSet",
54            "FileSet",
55            "Item"
56        ],
57        "accession": "IGVFDS0635KHHW",
58        "data_use_limitation_summaries": [
59            "no certificate"
60        ],
61        "file_set_type": "intermediate analysis",
62        "samples": [
63            {
64                "@id": "/tissues/IGVFSM8719IQYM/",
65                "@type": [
66                    "Tissue",
67                    "Biosample",
68                    "Sample",
69                    "Item"
70                ],
71                "accession": "IGVFSM8719IQYM",
72                "classifications": [
73                    "tissue"
74                ],
75                "sample_terms": [
76                    {
77                        "@id": "/sample-terms/UBERON_0000955/",
78                        "status": "released",
79                        "term_name": "brain"
80                    }
81                ],
82                "status": "released",
83                "summary": "Mus musculus C57BL/6 (female) brain tissue (cellular sub pool: SS-PKR 130)",
84                "taxa": "Mus musculus"
85            }
86        ],
87        "status": "released",
88        "summary": "single-cell ATAC-seq (SHARE-seq), single-cell RNA sequencing assay (SHARE-seq)"
89    },
90    "file_size": 3023634110,
91    "filtered": false,
92    "gene_list_for": [],
93    "href": "/alignment-files/IGVFFI0876EPIM/@@download/IGVFFI0876EPIM.bam",
94    "input_file_for": [
95        "/index-files/IGVFFI3983XJWW/"
96    ],
97    "integrated_in": [],
98    "lab": {
99        "@id": "/labs/jason-buenrostro/",
100        "title": "Jason Buenrostro, Broad"
101    },
102    "loci_list_for": [],
103    "md5sum": "58e170bd465d25133df00a952a5ba77f",
104    "quality_metrics": [
105        "/single-cell-atac-seq-quality-metrics/e8e139ef-dc48-4ce1-a40c-141b4567e7c8/"
106    ],
107    "read_count": 80486043,
108    "redacted": false,
109    "reference_files": [
110        "/reference-files/IGVFFI5593VLWB/",
111        "/reference-files/IGVFFI9282QLXO/"
112    ],
113    "release_timestamp": "2025-05-07T20:34:59.271633+00:00",
114    "s3_uri": "s3://igvf-files/2025/03/27/23c3e7cd-6e19-4b66-89c0-37ff90d25f12/IGVFFI0876EPIM.bam",
115    "schema_version": "14",
116    "status": "released",
117    "submitted_by": {
118        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
119        "title": "Siddarth Wekhande"
120    },
121    "submitted_file_name": "gs://fc-9649faf8-a4ec-4ca4-a975-498a1707d03c/submissions/a6d4a8e2-651e-421f-ae34-bfdf4cf1f42e/single_cell_pipeline/225aed6b-71f4-42ae-989a-45619457db1e/call-atac/wf_atac/0187a2d3-be98-4679-aa42-6e9d43d160ba/call-generate_bam/SS-PKR-130.bam",
122    "summary": "GRCm39 unfiltered alignments",
123    "upload_status": "validated",
124    "uuid": "23c3e7cd-6e19-4b66-89c0-37ff90d25f12",
125    "workflow": {
126        "@id": "/workflows/IGVFWF7365VWQV/",
127        "name": "igvf single cell uniform pipeline",
128        "uniform_pipeline": true
129    }
130}