IGVFFI2026RIMK

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI2026RIMK/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI2026RIMK",
10    "aliases": [
11        "ansuman-satpathy:igvf_exp12_multi_10x5_NGS5_r1"
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": "a1e60e69ada2f90b1abf7a0737ccdeaf",
22    "content_type": "reads",
23    "controlled_access": true,
24    "creation_timestamp": "2024-07-24T01:33:08.272387+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/auxiliary-sets/IGVFDS8937ZULR/",
29        "@type": [
30            "AuxiliarySet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS8937ZULR",
35        "file_set_type": "lipid-conjugated oligo sequencing",
36        "samples": [
37            {
38                "@id": "/multiplexed-samples/IGVFSM1640UGWP/",
39                "@type": [
40                    "MultiplexedSample",
41                    "Sample",
42                    "Item"
43                ],
44                "accession": "IGVFSM1640UGWP",
45                "classifications": [
46                    "differentiated cell specimen",
47                    "tissue",
48                    "multiplexed sample"
49                ],
50                "disease_terms": [],
51                "modifications": [],
52                "sample_terms": [
53                    {
54                        "@id": "/sample-terms/CL_0000236/",
55                        "status": "released",
56                        "term_name": "B cell"
57                    },
58                    {
59                        "@id": "/sample-terms/UBERON_0002371/",
60                        "status": "released",
61                        "term_name": "bone marrow"
62                    }
63                ],
64                "status": "released",
65                "summary": "multiplexed sample: Homo sapiens (female) B differentiated cell specimen induced to plasmablast for 6 days; Homo sapiens (female) B differentiated cell specimen induced to plasmablast for 5 days; ... and 10 more samples",
66                "taxa": "Homo sapiens",
67                "treatments": []
68            }
69        ],
70        "status": "released",
71        "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)"
72    },
73    "file_size": 335796006,
74    "flowcell_id": "225LWLLT3",
75    "gene_list_for": [],
76    "href": "/sequence-files/IGVFFI2026RIMK/@@download/IGVFFI2026RIMK.fastq.gz",
77    "illumina_read_type": "R1",
78    "input_file_for": [
79        "/tabular-files/IGVFFI0145YXMH/"
80    ],
81    "integrated_in": [],
82    "lab": {
83        "@id": "/labs/ansuman-satpathy/",
84        "title": "Ansuman Satpathy, Stanford"
85    },
86    "lane": 5,
87    "loci_list_for": [],
88    "maximum_read_length": 28,
89    "md5sum": "bd61f24e1fea60b5b3ad5f4a70055214",
90    "mean_read_length": 28,
91    "minimum_read_length": 28,
92    "quality_metrics": [],
93    "read_count": 16126561,
94    "release_timestamp": "2025-03-22T00:39:23.251358+00:00",
95    "s3_uri": "s3://igvf-restricted-files/2024/07/24/15857cf2-5e92-41ce-950d-58c2cb82a86a/IGVFFI2026RIMK.fastq.gz",
96    "schema_version": "15",
97    "seqspecs": [
98        "/configuration-files/IGVFFI3389ZEVK/"
99    ],
100    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
101    "sequencing_platform": {
102        "@id": "/platform-terms/EFO_0022840/",
103        "status": "released",
104        "term_name": "Illumina NovaSeq X"
105    },
106    "sequencing_run": 1,
107    "status": "released",
108    "submitted_by": {
109        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
110        "title": "Christopher Mcginnis"
111    },
112    "submitted_file_name": "/oak/stanford/projects/igvf/Projects/240425_IGVF12_McGinnis/MULTI/FASTQ/MULTI5_S12_L005_R1_001.fastq.gz",
113    "summary": "R1 reads from sequencing run 1",
114    "upload_status": "validated",
115    "uuid": "15857cf2-5e92-41ce-950d-58c2cb82a86a"
116}