IGVFFI4243GKAV

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI4243GKAV/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI4243GKAV",
10    "aliases": [
11        "ansuman-satpathy:igvf_exp13_multi_10x4_NGS3_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": "3872c7cdf998a456031dcabe31c013a3",
22    "content_type": "reads",
23    "controlled_access": true,
24    "creation_timestamp": "2024-07-23T21:58:39.532886+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/auxiliary-sets/IGVFDS7173XOSJ/",
29        "@type": [
30            "AuxiliarySet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS7173XOSJ",
35        "file_set_type": "lipid-conjugated oligo sequencing",
36        "samples": [
37            {
38                "@id": "/multiplexed-samples/IGVFSM4220ALCU/",
39                "@type": [
40                    "MultiplexedSample",
41                    "Sample",
42                    "Item"
43                ],
44                "accession": "IGVFSM4220ALCU",
45                "classifications": [
46                    "tissue",
47                    "multiplexed sample"
48                ],
49                "disease_terms": [
50                    {
51                        "@id": "/phenotype-terms/MONDO_0005010/",
52                        "@type": [
53                            "PhenotypeTerm",
54                            "OntologyTerm",
55                            "Item"
56                        ],
57                        "status": "released",
58                        "summary": "coronary artery disorder",
59                        "term_name": "coronary artery disorder"
60                    }
61                ],
62                "modifications": [],
63                "sample_terms": [
64                    {
65                        "@id": "/sample-terms/UBERON_0001626/",
66                        "status": "released",
67                        "term_name": "left coronary artery"
68                    }
69                ],
70                "status": "released",
71                "summary": "multiplexed sample: Homo sapiens (female, 48 years) left coronary artery tissue associated with coronary artery disorder; Homo sapiens (female, 73 years) left coronary artery tissue associated with coronary artery disorder; ... and 2 more samples",
72                "taxa": "Homo sapiens",
73                "treatments": []
74            }
75        ],
76        "status": "released",
77        "summary": "lipid-conjugated oligo sequencing for single-nucleus RNA sequencing assay (10x multiome with MULTI-seq), single-nucleus ATAC-seq (10x multiome with MULTI-seq)"
78    },
79    "file_size": 59474142,
80    "flowcell_id": "22HHHWLT3",
81    "gene_list_for": [],
82    "href": "/sequence-files/IGVFFI4243GKAV/@@download/IGVFFI4243GKAV.fastq.gz",
83    "illumina_read_type": "I1",
84    "input_file_for": [
85        "/tabular-files/IGVFFI1834ZPFR/"
86    ],
87    "integrated_in": [],
88    "lab": {
89        "@id": "/labs/ansuman-satpathy/",
90        "title": "Ansuman Satpathy, Stanford"
91    },
92    "lane": 3,
93    "loci_list_for": [],
94    "maximum_read_length": 10,
95    "md5sum": "b5ca35da8550d2138ff07bcbb60035d5",
96    "mean_read_length": 10,
97    "minimum_read_length": 10,
98    "quality_metrics": [],
99    "read_count": 6735793,
100    "release_timestamp": "2025-03-22T00:40:26.035008+00:00",
101    "s3_uri": "s3://igvf-restricted-files/2024/07/23/647d5fae-3e25-49a9-9ff6-d657e8fbb9b6/IGVFFI4243GKAV.fastq.gz",
102    "schema_version": "15",
103    "seqspecs": [
104        "/configuration-files/IGVFFI0054BSGA/"
105    ],
106    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
107    "sequencing_platform": {
108        "@id": "/platform-terms/EFO_0022840/",
109        "status": "released",
110        "term_name": "Illumina NovaSeq X"
111    },
112    "sequencing_run": 1,
113    "status": "released",
114    "submitted_by": {
115        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
116        "title": "Christopher Mcginnis"
117    },
118    "submitted_file_name": "/oak/stanford/projects/igvf/Projects/240425_IGVF13_McGinnis/MULTI/FASTQ/igvf13_s4_multi_S8_L003_I1_001.fastq.gz",
119    "summary": "I1 reads from sequencing run 1",
120    "upload_status": "validated",
121    "uuid": "647d5fae-3e25-49a9-9ff6-d657e8fbb9b6"
122}