IGVFFI9892DBGM

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI9892DBGM/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI9892DBGM",
10    "aliases": [
11        "ansuman-satpathy:igvf_exp3_rna_10x2_NGS2_i1"
12    ],
13    "assay_titles": [
14        "10x multiome with MULTI-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012076/",
19        "component": "mapping"
20    },
21    "content_md5sum": "9b18c9ec01cfd3b4aaea40378c9f8d29",
22    "content_type": "reads",
23    "controlled_access": false,
24    "creation_timestamp": "2024-07-21T23:16:51.795828+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS4602PSGH/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS4602PSGH",
35        "assay_term": {
36            "@id": "/assay-terms/OBI_0003109/",
37            "term_name": "single-nucleus RNA sequencing assay"
38        },
39        "controlled_access": false,
40        "data_use_limitation_summaries": [
41            "No limitations"
42        ],
43        "file_set_type": "experimental data",
44        "samples": [
45            {
46                "@id": "/multiplexed-samples/IGVFSM8818QZOF/",
47                "@type": [
48                    "MultiplexedSample",
49                    "Sample",
50                    "Item"
51                ],
52                "accession": "IGVFSM8818QZOF",
53                "classifications": [
54                    "cell line",
55                    "differentiated cell specimen",
56                    "multiplexed sample"
57                ],
58                "disease_terms": [],
59                "modifications": [],
60                "sample_terms": [
61                    {
62                        "@id": "/sample-terms/EFO_0001187/",
63                        "status": "released",
64                        "term_name": "HepG2"
65                    },
66                    {
67                        "@id": "/sample-terms/EFO_0003045/",
68                        "status": "released",
69                        "term_name": "H9"
70                    },
71                    {
72                        "@id": "/sample-terms/EFO_0009747/",
73                        "status": "released",
74                        "term_name": "GM25256 (WTC-11)"
75                    }
76                ],
77                "status": "released",
78                "summary": "multiplexed sample: Homo sapiens (female) H9 differentiated cell specimen induced to cardiac muscle cell for 15 days; Homo sapiens (male) HepG2 cell line grown in DMEM without serum; ... and 10 more samples",
79                "taxa": "Homo sapiens",
80                "treatments": []
81            }
82        ],
83        "status": "released",
84        "summary": "single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)"
85    },
86    "file_size": 1451186276,
87    "flowcell_id": "223JJCLT3",
88    "gene_list_for": [],
89    "href": "/sequence-files/IGVFFI9892DBGM/@@download/IGVFFI9892DBGM.fastq.gz",
90    "illumina_read_type": "I1",
91    "input_file_for": [
92        "/matrix-files/IGVFFI6422LYRX/"
93    ],
94    "integrated_in": [],
95    "lab": {
96        "@id": "/labs/ansuman-satpathy/",
97        "title": "Ansuman Satpathy, Stanford"
98    },
99    "lane": 2,
100    "loci_list_for": [],
101    "maximum_read_length": 10,
102    "md5sum": "badca754be025aa8a8821f98daa9a4a4",
103    "mean_read_length": 10,
104    "minimum_read_length": 10,
105    "quality_metrics": [],
106    "read_count": 275133530,
107    "release_timestamp": "2025-03-07T01:11:14.268463+00:00",
108    "s3_uri": "s3://igvf-files/2024/07/21/942c9457-ae12-4674-aeb0-2de0037b46bc/IGVFFI9892DBGM.fastq.gz",
109    "schema_version": "15",
110    "seqspecs": [
111        "/configuration-files/IGVFFI8793WAEB/"
112    ],
113    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
114    "sequencing_platform": {
115        "@id": "/platform-terms/EFO_0022840/",
116        "status": "released",
117        "term_name": "Illumina NovaSeq X"
118    },
119    "sequencing_run": 1,
120    "status": "released",
121    "submitted_by": {
122        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
123        "title": "Christopher Mcginnis"
124    },
125    "submitted_file_name": "/oak/stanford/projects/igvf/Projects/230522_IGVF3_McGinnis/GEX/FASTQ/GEX_2_S2_L002_I1_001.fastq.gz",
126    "summary": "I1 reads from sequencing run 1",
127    "upload_status": "validated",
128    "uuid": "942c9457-ae12-4674-aeb0-2de0037b46bc"
129}