IGVFFI9123EDDK

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI9123EDDK/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI9123EDDK",
10    "aliases": [
11        "ansuman-satpathy:igvf_exp5_multi_10x4_NGS2_i2"
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": "2b9c22471a615a22f9df5930e0ff5fe0",
22    "content_type": "reads",
23    "controlled_access": false,
24    "creation_timestamp": "2024-07-22T23:54:19.722603+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/auxiliary-sets/IGVFDS3303TULU/",
29        "@type": [
30            "AuxiliarySet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS3303TULU",
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/IGVFSM3106AWHF/",
43                "@type": [
44                    "MultiplexedSample",
45                    "Sample",
46                    "Item"
47                ],
48                "accession": "IGVFSM3106AWHF",
49                "classifications": [
50                    "cell line",
51                    "differentiated cell specimen",
52                    "gastruloid",
53                    "multiplexed sample"
54                ],
55                "disease_terms": [],
56                "modifications": [],
57                "sample_terms": [
58                    {
59                        "@id": "/sample-terms/EFO_0001184/",
60                        "status": "released",
61                        "term_name": "HEK293T"
62                    },
63                    {
64                        "@id": "/sample-terms/EFO_0003042/",
65                        "status": "released",
66                        "term_name": "H1-hESC"
67                    },
68                    {
69                        "@id": "/sample-terms/EFO_0003045/",
70                        "status": "released",
71                        "term_name": "H9"
72                    },
73                    {
74                        "@id": "/sample-terms/EFO_0009747/",
75                        "status": "released",
76                        "term_name": "GM25256 (WTC-11)"
77                    }
78                ],
79                "status": "released",
80                "summary": "multiplexed sample: Homo sapiens (female) H9 differentiated cell specimen induced to neuron for 6 days; Homo sapiens (female) H9 differentiated cell specimen induced to neuron for 6 days; ... and 6 more samples",
81                "taxa": "Homo sapiens",
82                "treatments": []
83            }
84        ],
85        "status": "released",
86        "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)"
87    },
88    "file_size": 255040757,
89    "flowcell_id": "223JJCLT3",
90    "gene_list_for": [],
91    "href": "/sequence-files/IGVFFI9123EDDK/@@download/IGVFFI9123EDDK.fastq.gz",
92    "illumina_read_type": "I2",
93    "input_file_for": [
94        "/tabular-files/IGVFFI5624ZRQW/"
95    ],
96    "integrated_in": [],
97    "lab": {
98        "@id": "/labs/ansuman-satpathy/",
99        "title": "Ansuman Satpathy, Stanford"
100    },
101    "lane": 6,
102    "loci_list_for": [],
103    "maximum_read_length": 10,
104    "md5sum": "2685ceee4f2ec8b0aef8a99db59cc5b1",
105    "mean_read_length": 10,
106    "minimum_read_length": 10,
107    "quality_metrics": [],
108    "read_count": 45739353,
109    "release_timestamp": "2025-03-07T01:12:09.358067+00:00",
110    "s3_uri": "s3://igvf-files/2024/07/22/03c6f834-ab48-4967-af90-61a347072818/IGVFFI9123EDDK.fastq.gz",
111    "schema_version": "15",
112    "seqspecs": [
113        "/configuration-files/IGVFFI0349JQAS/"
114    ],
115    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
116    "sequencing_platform": {
117        "@id": "/platform-terms/EFO_0022840/",
118        "status": "released",
119        "term_name": "Illumina NovaSeq X"
120    },
121    "sequencing_run": 1,
122    "status": "released",
123    "submitted_by": {
124        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
125        "title": "Christopher Mcginnis"
126    },
127    "submitted_file_name": "/oak/stanford/projects/igvf/Projects/230522_IGVF5_McGinnis/MULTI/FASTQ/MULTI_4_S24_L006_I2_001.fastq.gz",
128    "summary": "I2 reads from sequencing run 1",
129    "upload_status": "validated",
130    "uuid": "03c6f834-ab48-4967-af90-61a347072818"
131}