IGVFFI3495CSEB

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/index-files/IGVFFI3495CSEB/",
4    "@type": [
5        "IndexFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI3495CSEB",
10    "aliases": [
11        "ansuman-satpathy:igvf2_fragments_index_10x1"
12    ],
13    "analysis_step_version": "/analysis-step-versions/699d6738-4033-4afc-b6f3-1d82a80e0b41/",
14    "assay_titles": [
15        "10x multiome with MULTI-seq"
16    ],
17    "audit": {},
18    "award": {
19        "@id": "/awards/HG011972/",
20        "component": "functional characterization"
21    },
22    "checkfiles_version": "v17",
23    "content_md5sum": "792971651342d986b6a3a6048b66ab28",
24    "content_type": "index",
25    "controlled_access": false,
26    "creation_timestamp": "2025-01-28T15:27:54.544165+00:00",
27    "derived_from": [
28        "/tabular-files/IGVFFI6774RPHJ/"
29    ],
30    "file_format": "tbi",
31    "file_set": {
32        "@id": "/analysis-sets/IGVFDS1583PWNS/",
33        "@type": [
34            "AnalysisSet",
35            "FileSet",
36            "Item"
37        ],
38        "accession": "IGVFDS1583PWNS",
39        "file_set_type": "intermediate analysis",
40        "samples": [
41            {
42                "@id": "/multiplexed-samples/IGVFSM3646QLDO/",
43                "@type": [
44                    "MultiplexedSample",
45                    "Sample",
46                    "Item"
47                ],
48                "accession": "IGVFSM3646QLDO",
49                "classifications": [
50                    "cell line",
51                    "multiplexed sample"
52                ],
53                "disease_terms": [],
54                "modifications": [],
55                "sample_terms": [
56                    {
57                        "@id": "/sample-terms/NTR_0000753/",
58                        "status": "released",
59                        "term_name": "TeloHAEC"
60                    }
61                ],
62                "status": "released",
63                "summary": "multiplexed sample: Homo sapiens (female) TeloHAEC cell line treated with 10 ng/mL tumor necrosis factor alpha for 4 hours; Homo sapiens (female) TeloHAEC cell line; ... and 7 more samples",
64                "taxa": "Homo sapiens",
65                "treatments": [
66                    {
67                        "@id": "/treatments/d2d49540-dd91-49e2-b877-ce9aa0af8bb0/",
68                        "purpose": "perturbation",
69                        "status": "in progress",
70                        "summary": "Treatment of 10 ng/mL tumor necrosis factor alpha for 4 hours",
71                        "treatment_term_name": "tumor necrosis factor alpha"
72                    },
73                    {
74                        "@id": "/treatments/de8a9e87-d0e1-4ecb-bc9d-08e61b4ff368/",
75                        "purpose": "perturbation",
76                        "status": "in progress",
77                        "summary": "Treatment of 10 ng/mL tumor necrosis factor alpha for 1 day",
78                        "treatment_term_name": "tumor necrosis factor alpha"
79                    }
80                ]
81            }
82        ],
83        "status": "released",
84        "summary": "10x multiome with MULTI-seq: cell hashing barcodes, fragments, index, peaks, raw feature barcode matrix"
85    },
86    "file_size": 2005906,
87    "gene_list_for": [],
88    "href": "/index-files/IGVFFI3495CSEB/@@download/IGVFFI3495CSEB.tbi",
89    "input_file_for": [],
90    "integrated_in": [],
91    "lab": {
92        "@id": "/labs/ansuman-satpathy/",
93        "title": "Ansuman Satpathy, Stanford"
94    },
95    "loci_list_for": [],
96    "md5sum": "5d979256758a61d0c3eb843706c3ba28",
97    "quality_metrics": [],
98    "release_timestamp": "2025-03-07T06:04:10.692859+00:00",
99    "s3_uri": "s3://igvf-files/2025/01/28/4f693212-65af-4357-9cd7-830748d1fb86/IGVFFI3495CSEB.tbi",
100    "schema_version": "1",
101    "status": "released",
102    "submitted_by": {
103        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
104        "title": "Christopher Mcginnis"
105    },
106    "submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/analysis_sets/igvf2/e2l1_fragments.tsv.gz.tbi",
107    "summary": "index of IGVFFI6774RPHJ",
108    "upload_status": "validated",
109    "uuid": "4f693212-65af-4357-9cd7-830748d1fb86",
110    "workflow": {
111        "@id": "/workflows/IGVFWF1453HVEC/",
112        "name": "Satpathy Cell Ranger",
113        "uniform_pipeline": false
114    }
115}