IGVFFI8513NQCU

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/index-files/IGVFFI8513NQCU/",
4    "@type": [
5        "IndexFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI8513NQCU",
10    "aliases": [
11        "ansuman-satpathy:igvf4_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": "b78d3f81fc3b83bb85686d8df67b0988",
24    "content_type": "index",
25    "controlled_access": false,
26    "creation_timestamp": "2025-01-28T15:28:02.573098+00:00",
27    "derived_from": [
28        "/tabular-files/IGVFFI8225EESE/"
29    ],
30    "file_format": "tbi",
31    "file_set": {
32        "@id": "/analysis-sets/IGVFDS2649QXJV/",
33        "@type": [
34            "AnalysisSet",
35            "FileSet",
36            "Item"
37        ],
38        "accession": "IGVFDS2649QXJV",
39        "file_set_type": "intermediate analysis",
40        "samples": [
41            {
42                "@id": "/multiplexed-samples/IGVFSM8594ZCZM/",
43                "@type": [
44                    "MultiplexedSample",
45                    "Sample",
46                    "Item"
47                ],
48                "accession": "IGVFSM8594ZCZM",
49                "classifications": [
50                    "cell line",
51                    "multiplexed sample"
52                ],
53                "disease_terms": [],
54                "modifications": [],
55                "sample_terms": [
56                    {
57                        "@id": "/sample-terms/EFO_0009747/",
58                        "status": "released",
59                        "term_name": "GM25256 (WTC-11)"
60                    }
61                ],
62                "status": "released",
63                "summary": "multiplexed sample: Homo sapiens (male) GM25256 (WTC-11) cell line treated with 50 ng/mL interleukin 4 for 1 day; Homo sapiens (male) GM25256 (WTC-11) cell line treated with 100 ng/mL macrophage colony-stimulating factor 1 for 7 days; ... and 13 more samples",
64                "taxa": "Homo sapiens",
65                "treatments": [
66                    {
67                        "@id": "/treatments/2987f643-86dc-4113-af7e-d4b5d162b5c8/",
68                        "purpose": "differentiation",
69                        "status": "in progress",
70                        "summary": "Treatment of 0.025 ng/mL acetylated low density lipoprotein for 1 day",
71                        "treatment_term_name": "acetylated low density lipoprotein"
72                    },
73                    {
74                        "@id": "/treatments/729630f8-aa05-47f5-9cba-ee7a264da593/",
75                        "purpose": "differentiation",
76                        "status": "in progress",
77                        "summary": "Treatment of 50 ng/mL interleukin 4 for 1 day",
78                        "treatment_term_name": "interleukin 4"
79                    },
80                    {
81                        "@id": "/treatments/ae8065d2-85f3-498e-b4f2-01a38756d48e/",
82                        "purpose": "differentiation",
83                        "status": "in progress",
84                        "summary": "Treatment of 20 ng/mL interferon gamma for 1 day",
85                        "treatment_term_name": "interferon gamma"
86                    },
87                    {
88                        "@id": "/treatments/bec71d5e-97ef-489a-acb7-5336691b6c39/",
89                        "purpose": "differentiation",
90                        "status": "in progress",
91                        "summary": "Treatment of 100 ng/mL macrophage colony-stimulating factor 1 for 7 days",
92                        "treatment_term_name": "macrophage colony-stimulating factor 1"
93                    }
94                ]
95            }
96        ],
97        "status": "released",
98        "summary": "10x multiome with MULTI-seq: cell hashing barcodes, fragments, index, peaks, raw feature barcode matrix"
99    },
100    "file_size": 1737102,
101    "gene_list_for": [],
102    "href": "/index-files/IGVFFI8513NQCU/@@download/IGVFFI8513NQCU.tbi",
103    "input_file_for": [],
104    "integrated_in": [],
105    "lab": {
106        "@id": "/labs/ansuman-satpathy/",
107        "title": "Ansuman Satpathy, Stanford"
108    },
109    "loci_list_for": [],
110    "md5sum": "fd19b20dfa65a54635406a4f3fd3821e",
111    "quality_metrics": [],
112    "release_timestamp": "2025-03-07T06:04:25.522705+00:00",
113    "s3_uri": "s3://igvf-files/2025/01/28/1787b75f-5710-4237-bbbb-263ac2eccedf/IGVFFI8513NQCU.tbi",
114    "schema_version": "1",
115    "status": "released",
116    "submitted_by": {
117        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
118        "title": "Christopher Mcginnis"
119    },
120    "submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/analysis_sets/igvf4/e4l1_fragments.tsv.gz.tbi",
121    "summary": "index of IGVFFI8225EESE",
122    "upload_status": "validated",
123    "uuid": "1787b75f-5710-4237-bbbb-263ac2eccedf",
124    "workflow": {
125        "@id": "/workflows/IGVFWF1453HVEC/",
126        "name": "Satpathy Cell Ranger",
127        "uniform_pipeline": false
128    }
129}