IGVFFI3664SOGT

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI3664SOGT/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI3664SOGT",
10    "aliases": [
11        "ansuman-satpathy:igvf_exp11_multi_10x2_NGS1_r2"
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": "cc17be18b8c43f80c55cf157da100cd8",
22    "content_type": "reads",
23    "controlled_access": false,
24    "creation_timestamp": "2024-07-23T00:13:22.049627+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/auxiliary-sets/IGVFDS6865MRYQ/",
29        "@type": [
30            "AuxiliarySet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS6865MRYQ",
35        "controlled_access": false,
36        "data_use_limitation_summaries": [
37            "No limitations"
38        ],
39        "file_set_type": "lipid-conjugated oligo sequencing",
40        "samples": [
41            {
42                "@id": "/multiplexed-samples/IGVFSM9487HFQW/",
43                "@type": [
44                    "MultiplexedSample",
45                    "Sample",
46                    "Item"
47                ],
48                "accession": "IGVFSM9487HFQW",
49                "classifications": [
50                    "differentiated cell specimen",
51                    "multiplexed sample"
52                ],
53                "disease_terms": [],
54                "modifications": [],
55                "sample_terms": [
56                    {
57                        "@id": "/sample-terms/EFO_0005904/",
58                        "status": "released",
59                        "term_name": "H7-hESC"
60                    },
61                    {
62                        "@id": "/sample-terms/EFO_0009747/",
63                        "status": "released",
64                        "term_name": "GM25256 (WTC-11)"
65                    }
66                ],
67                "status": "released",
68                "summary": "multiplexed sample: Homo sapiens (female) H7-hESC differentiated cell specimen; Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 6 days; ... and 10 more samples",
69                "taxa": "Homo sapiens",
70                "treatments": []
71            }
72        ],
73        "status": "released",
74        "summary": "lipid-conjugated oligo sequencing for single-nucleus ATAC-seq (10x multiome with MULTI-seq), single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)"
75    },
76    "file_size": 7804521306,
77    "flowcell_id": "HGVFMDSX7",
78    "gene_list_for": [],
79    "href": "/sequence-files/IGVFFI3664SOGT/@@download/IGVFFI3664SOGT.fastq.gz",
80    "illumina_read_type": "R2",
81    "input_file_for": [
82        "/tabular-files/IGVFFI2670PCOB/"
83    ],
84    "integrated_in": [],
85    "lab": {
86        "@id": "/labs/ansuman-satpathy/",
87        "title": "Ansuman Satpathy, Stanford"
88    },
89    "lane": 3,
90    "loci_list_for": [],
91    "maximum_read_length": 101,
92    "md5sum": "f81a7125314deb4122d0b6ccf019af68",
93    "mean_read_length": 101,
94    "minimum_read_length": 101,
95    "quality_metrics": [],
96    "read_count": 143691919,
97    "release_timestamp": "2025-03-07T01:14:09.639749+00:00",
98    "s3_uri": "s3://igvf-files/2024/07/23/0d75f481-b0ed-43e2-9c1d-45ce8f2b2b5a/IGVFFI3664SOGT.fastq.gz",
99    "schema_version": "15",
100    "seqspecs": [
101        "/configuration-files/IGVFFI6949KZSJ/"
102    ],
103    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
104    "sequencing_platform": {
105        "@id": "/platform-terms/EFO_0022840/",
106        "status": "released",
107        "term_name": "Illumina NovaSeq X"
108    },
109    "sequencing_run": 1,
110    "status": "released",
111    "submitted_by": {
112        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
113        "title": "Christopher Mcginnis"
114    },
115    "submitted_file_name": "/oak/stanford/projects/igvf/Projects/240424_IGVF11_McGinnis/MULTI/FASTQ/MULTI2_S27_L003_R2_001.fastq.gz",
116    "summary": "R2 reads from sequencing run 1",
117    "upload_status": "validated",
118    "uuid": "0d75f481-b0ed-43e2-9c1d-45ce8f2b2b5a"
119}