IGVFFI9795MDBY

1{
2    "@context": "/terms/",
3    "@id": "/matrix-files/IGVFFI9795MDBY/",
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6        "File",
7        "Item"
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9    "accession": "IGVFFI9795MDBY",
10    "aliases": [
11        "ansuman-satpathy:igvf6_raw_rna_counts_10x4"
12    ],
13    "analysis_step_version": "/analysis-step-versions/072beaf9-db5c-4bb3-9d63-e5cf7ee29dd6/",
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": "v14",
23    "content_summary": "cell by gene in raw feature barcode matrix",
24    "content_type": "raw feature barcode matrix",
25    "creation_timestamp": "2025-01-28T15:37:27.385615+00:00",
26    "derived_from": [
27        "/sequence-files/IGVFFI9376VMNT/",
28        "/sequence-files/IGVFFI8166DIWR/",
29        "/sequence-files/IGVFFI9056HQUT/",
30        "/sequence-files/IGVFFI2705QXPC/",
31        "/sequence-files/IGVFFI2582COPQ/",
32        "/sequence-files/IGVFFI4100LRTU/",
33        "/sequence-files/IGVFFI6261TVHR/",
34        "/sequence-files/IGVFFI4655HMTX/",
35        "/sequence-files/IGVFFI1710TRHP/",
36        "/sequence-files/IGVFFI6271WCIT/",
37        "/sequence-files/IGVFFI6342FHNV/",
38        "/sequence-files/IGVFFI9549SPQY/"
39    ],
40    "file_format": "hdf5",
41    "file_format_specifications": [
42        {
43            "@id": "/documents/e18648f3-63a8-47e0-be86-2670f0cb68f0/",
44            "description": "Raw RNA count matrix definition for 10x multiome"
45        }
46    ],
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52            "Item"
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54        "accession": "IGVFDS0287NOBE",
55        "controlled_access": false,
56        "data_use_limitation_summaries": [
57            "No limitations"
58        ],
59        "file_set_type": "intermediate analysis",
60        "samples": [
61            {
62                "@id": "/multiplexed-samples/IGVFSM2522EBPE/",
63                "@type": [
64                    "MultiplexedSample",
65                    "Sample",
66                    "Item"
67                ],
68                "accession": "IGVFSM2522EBPE",
69                "classifications": [
70                    "cell line",
71                    "differentiated cell specimen",
72                    "multiplexed sample"
73                ],
74                "disease_terms": [],
75                "modifications": [],
76                "sample_terms": [
77                    {
78                        "@id": "/sample-terms/EFO_0003042/",
79                        "status": "released",
80                        "term_name": "H1-hESC"
81                    }
82                ],
83                "status": "released",
84                "summary": "multiplexed sample: Homo sapiens (male) H1-hESC differentiated cell specimen induced to islet of Langerhans for 18 days; Homo sapiens (male) H1-hESC differentiated cell specimen induced to islet of Langerhans for 7 days; ... and 6 more samples",
85                "taxa": "Homo sapiens",
86                "treatments": []
87            }
88        ],
89        "status": "released",
90        "summary": "single-nucleus ATAC-seq (10x multiome with MULTI-seq), single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)"
91    },
92    "file_size": 148359929,
93    "gene_list_for": [],
94    "href": "/matrix-files/IGVFFI9795MDBY/@@download/IGVFFI9795MDBY.h5",
95    "input_file_for": [],
96    "integrated_in": [],
97    "lab": {
98        "@id": "/labs/ansuman-satpathy/",
99        "title": "Ansuman Satpathy, Stanford"
100    },
101    "loci_list_for": [],
102    "md5sum": "f47384799d375d390824e650c831c2a5",
103    "principal_dimension": "cell",
104    "quality_metrics": [],
105    "reference_files": [
106        "/reference-files/IGVFFI8311QXYM/",
107        "/reference-files/IGVFFI3944QOJF/"
108    ],
109    "release_timestamp": "2025-03-07T06:04:44.827736+00:00",
110    "s3_uri": "s3://igvf-files/2025/01/28/78b84849-5f46-456f-bb8c-e1acb4a2fc0b/IGVFFI9795MDBY.h5",
111    "schema_version": "7",
112    "secondary_dimensions": [
113        "gene"
114    ],
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/igvf6/e6l4_raw_feature_bc_matrix.h5",
121    "summary": "cell by gene in raw feature barcode matrix",
122    "upload_status": "validated",
123    "uuid": "78b84849-5f46-456f-bb8c-e1acb4a2fc0b",
124    "workflow": {
125        "@id": "/workflows/IGVFWF1453HVEC/",
126        "name": "Satpathy Cell Ranger",
127        "uniform_pipeline": false
128    }
129}