IGVFFI9430CLWM

1{
2    "@context": "/terms/",
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4    "@type": [
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6        "File",
7        "Item"
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9    "accession": "IGVFFI9430CLWM",
10    "aliases": [
11        "ansuman-satpathy:igvf17_raw_rna_counts_10x5"
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": "2025-01-28T23:12:06.642671+00:00",
26    "derived_from": [
27        "/sequence-files/IGVFFI1514EJBS/",
28        "/sequence-files/IGVFFI8307CRFZ/",
29        "/sequence-files/IGVFFI4512PDWA/",
30        "/sequence-files/IGVFFI9302ZMEC/",
31        "/sequence-files/IGVFFI8289PJVD/",
32        "/sequence-files/IGVFFI4612QDKN/",
33        "/sequence-files/IGVFFI9911JODD/",
34        "/sequence-files/IGVFFI4353QSPB/",
35        "/sequence-files/IGVFFI2613EKTB/",
36        "/sequence-files/IGVFFI1271MOSD/",
37        "/sequence-files/IGVFFI4251LYXD/",
38        "/sequence-files/IGVFFI4259UEYN/",
39        "/sequence-files/IGVFFI4656FZOP/",
40        "/sequence-files/IGVFFI4831HFMZ/",
41        "/sequence-files/IGVFFI6191QTWY/",
42        "/sequence-files/IGVFFI8971IFJX/"
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46        {
47            "@id": "/documents/e18648f3-63a8-47e0-be86-2670f0cb68f0/",
48            "description": "Raw RNA count matrix definition for 10x multiome"
49        }
50    ],
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52        "@id": "/analysis-sets/IGVFDS3556MYLH/",
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54            "AnalysisSet",
55            "FileSet",
56            "Item"
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58        "accession": "IGVFDS3556MYLH",
59        "controlled_access": false,
60        "data_use_limitation_summaries": [
61            "No limitations"
62        ],
63        "file_set_type": "intermediate analysis",
64        "samples": [
65            {
66                "@id": "/multiplexed-samples/IGVFSM8270UYGU/",
67                "@type": [
68                    "MultiplexedSample",
69                    "Sample",
70                    "Item"
71                ],
72                "accession": "IGVFSM8270UYGU",
73                "classifications": [
74                    "differentiated cell specimen",
75                    "multiplexed sample"
76                ],
77                "disease_terms": [],
78                "modifications": [],
79                "sample_terms": [
80                    {
81                        "@id": "/sample-terms/EFO_0009320/",
82                        "status": "released",
83                        "term_name": "RUES2"
84                    }
85                ],
86                "status": "released",
87                "summary": "multiplexed sample: Homo sapiens (female) RUES2 differentiated cell specimen induced to gastrula for 2 days; Homo sapiens (female) RUES2 differentiated cell specimen induced to gastrula for 1 day; ... and 10 more samples",
88                "taxa": "Homo sapiens",
89                "treatments": []
90            }
91        ],
92        "status": "released",
93        "summary": "single-nucleus ATAC-seq (10x multiome with MULTI-seq), single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)"
94    },
95    "file_size": 162778650,
96    "gene_list_for": [],
97    "href": "/matrix-files/IGVFFI9430CLWM/@@download/IGVFFI9430CLWM.h5",
98    "input_file_for": [],
99    "integrated_in": [],
100    "lab": {
101        "@id": "/labs/ansuman-satpathy/",
102        "title": "Ansuman Satpathy, Stanford"
103    },
104    "loci_list_for": [],
105    "md5sum": "6f7014268f319b8cc99afdf39320e73f",
106    "principal_dimension": "cell",
107    "quality_metrics": [],
108    "reference_files": [
109        "/reference-files/IGVFFI8311QXYM/",
110        "/reference-files/IGVFFI3944QOJF/"
111    ],
112    "release_timestamp": "2025-03-07T06:05:30.884530+00:00",
113    "s3_uri": "s3://igvf-files/2025/01/28/96e41ab1-7d9b-42f5-9e12-68b808a1e94b/IGVFFI9430CLWM.h5",
114    "schema_version": "7",
115    "secondary_dimensions": [
116        "gene"
117    ],
118    "status": "released",
119    "submitted_by": {
120        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
121        "title": "Christopher Mcginnis"
122    },
123    "submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/analysis_sets/igvf17/e17l5_raw_feature_bc_matrix.h5",
124    "summary": "cell by gene in raw feature barcode matrix",
125    "upload_status": "validated",
126    "uuid": "96e41ab1-7d9b-42f5-9e12-68b808a1e94b",
127    "workflow": {
128        "@id": "/workflows/IGVFWF1453HVEC/",
129        "name": "Satpathy Cell Ranger",
130        "uniform_pipeline": false
131    }
132}