IGVFFI4235BPMB

preview
validated
1{
2    "@context": "/terms/",
3    "@id": "/tabular-files/IGVFFI4235BPMB/",
4    "@type": [
5        "TabularFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI4235BPMB",
10    "aliases": [
11        "harinder-singh:Bcells_don1_pitt_multiome_day012_atac_fragments"
12    ],
13    "analysis_step_version": "/analysis-step-versions/e904b252-f348-4c6d-835c-5ae6bf91b9a0/",
14    "assay_titles": [
15        "10x multiome"
16    ],
17    "audit": {},
18    "award": {
19        "@id": "/awards/HG012041/",
20        "component": "networks"
21    },
22    "barcode_map_for": [],
23    "checkfiles_version": "v20",
24    "content_md5sum": "28ecb4bd894a0a24a775b17c818d75e5",
25    "content_type": "fragments",
26    "controlled_access": true,
27    "creation_timestamp": "2025-04-02T02:13:55.840289+00:00",
28    "derived_from": [
29        "/sequence-files/IGVFFI0633YPSK/",
30        "/sequence-files/IGVFFI3557HDSC/",
31        "/sequence-files/IGVFFI8208VRGS/",
32        "/sequence-files/IGVFFI4844LRLJ/",
33        "/sequence-files/IGVFFI4355VZKC/",
34        "/sequence-files/IGVFFI3653OYSB/",
35        "/sequence-files/IGVFFI0486KRGW/",
36        "/sequence-files/IGVFFI2989ICSG/",
37        "/sequence-files/IGVFFI3433YEFI/",
38        "/sequence-files/IGVFFI3739JOEC/",
39        "/sequence-files/IGVFFI9249PWWE/",
40        "/sequence-files/IGVFFI8641BMYV/",
41        "/sequence-files/IGVFFI5849BWNL/",
42        "/sequence-files/IGVFFI3482VZAG/",
43        "/sequence-files/IGVFFI4080SDQJ/",
44        "/sequence-files/IGVFFI7615HIGI/",
45        "/sequence-files/IGVFFI7400ROID/",
46        "/sequence-files/IGVFFI3708MZMR/",
47        "/sequence-files/IGVFFI3333MNRU/",
48        "/sequence-files/IGVFFI3613ESHP/",
49        "/sequence-files/IGVFFI9945HRIU/",
50        "/sequence-files/IGVFFI9998MEBG/",
51        "/sequence-files/IGVFFI2105ICHL/",
52        "/sequence-files/IGVFFI2337CWXJ/"
53    ],
54    "file_format": "tsv",
55    "file_format_specifications": [
56        {
57            "@id": "/documents/f8b80bcb-0589-42a6-a0a8-56c2a98d882e/",
58            "description": "Format specification for atac_fragments.csv  files  derived from cellranger arc"
59        }
60    ],
61    "file_set": {
62        "@id": "/analysis-sets/IGVFDS4340KVZI/",
63        "@type": [
64            "AnalysisSet",
65            "FileSet",
66            "Item"
67        ],
68        "accession": "IGVFDS4340KVZI",
69        "controlled_access": true,
70        "data_use_limitation_summaries": [
71            "HMB"
72        ],
73        "file_set_type": "intermediate analysis",
74        "samples": [
75            {
76                "@id": "/in-vitro-systems/IGVFSM8093SHHZ/",
77                "@type": [
78                    "InVitroSystem",
79                    "Biosample",
80                    "Sample",
81                    "Item"
82                ],
83                "accession": "IGVFSM8093SHHZ",
84                "classifications": [
85                    "differentiated cell specimen"
86                ],
87                "sample_terms": [
88                    {
89                        "@id": "/sample-terms/CL_0000236/",
90                        "status": "released",
91                        "term_name": "B cell"
92                    }
93                ],
94                "status": "preview",
95                "summary": "Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 2 days",
96                "targeted_sample_term": {
97                    "@id": "/sample-terms/CL_0000980/",
98                    "status": "released",
99                    "term_name": "plasmablast"
100                },
101                "taxa": "Homo sapiens"
102            }
103        ],
104        "status": "preview",
105        "summary": "single-nucleus ATAC-seq (10x multiome), single-nucleus RNA sequencing assay (10x multiome)"
106    },
107    "file_size": 1830302595,
108    "gene_list_for": [],
109    "href": "/tabular-files/IGVFFI4235BPMB/@@download/IGVFFI4235BPMB.tsv.gz",
110    "input_file_for": [
111        "/matrix-files/IGVFFI3586OAIM/"
112    ],
113    "integrated_in": [],
114    "lab": {
115        "@id": "/labs/harinder-singh/",
116        "title": "Harinder Singh, University of Pittsburgh"
117    },
118    "loci_list_for": [],
119    "md5sum": "55db4df2dee67fc5dc7f2d2817fb5a1e",
120    "primer_design_for": [],
121    "quality_metrics": [],
122    "s3_uri": "s3://igvf-restricted-files/2025/04/02/4d8940b6-0e8c-4370-a693-3d5204e9675e/IGVFFI4235BPMB.tsv.gz",
123    "schema_version": "15",
124    "status": "preview",
125    "submitted_by": {
126        "@id": "/users/d2668d67-5e6f-49e8-82ca-7bb12229f892/",
127        "title": "Nicholas Pease"
128    },
129    "submitted_file_name": "/ix/djishnu/Common_Folder/Jingyu_Data/multiome_1st_donor_UPMC_day0_2/outs/atac_fragments.tsv.gz",
130    "summary": "fragments",
131    "upload_status": "validated",
132    "uuid": "4d8940b6-0e8c-4370-a693-3d5204e9675e",
133    "workflow": {
134        "@id": "/workflows/IGVFWF8495CUNO/",
135        "name": "Singh Single Cell Multiome Workflow",
136        "uniform_pipeline": false
137    }
138}