IGVFFI8503OKYN

released
validated
{
    "@context": "/terms/",
    "@id": "/alignment-files/IGVFFI8503OKYN/",
    "@type": [
        "AlignmentFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI8503OKYN",
    "aliases": [
        "charles-gersbach:alignment-set-bulk-rna-chir4um-ipsc-cm-rep3"
    ],
    "analysis_step_version": "/analysis-step-versions/7298947c-9675-4de2-933a-642bde562751/",
    "assay_titles": [
        "RNA-seq"
    ],
    "assembly": "GRCh38",
    "audit": {},
    "award": {
        "@id": "/awards/HG012053/",
        "component": "functional characterization"
    },
    "content_md5sum": "13bc875d203203154360837948158128",
    "content_summary": "filtered transcriptome alignments",
    "content_type": "transcriptome alignments",
    "controlled_access": false,
    "creation_timestamp": "2024-10-25T19:38:24.771681+00:00",
    "derived_from": [
        "/sequence-files/IGVFFI3789TSVB/",
        "/sequence-files/IGVFFI4288WBKI/"
    ],
    "file_format": "bam",
    "file_set": {
        "@id": "/analysis-sets/IGVFDS7046PDMA/",
        "accession": "IGVFDS7046PDMA",
        "file_set_type": "intermediate analysis",
        "samples": [
            {
                "@id": "/in-vitro-systems/IGVFSM7851SPEI/",
                "accession": "IGVFSM7851SPEI",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "status": "released",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "status": "released",
                "summary": "GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 28 days, male, Homo sapiens",
                "targeted_sample_term": {
                    "@id": "/sample-terms/CL_0000746/",
                    "status": "released",
                    "term_name": "cardiac muscle cell"
                },
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/in-vitro-systems/IGVFSM2298AOEQ/",
                "accession": "IGVFSM2298AOEQ",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "status": "released",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "status": "released",
                "summary": "GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 28 days, male, Homo sapiens treated with 4 μM GSK3 inhibition for 7 days",
                "targeted_sample_term": {
                    "@id": "/sample-terms/CL_0000746/",
                    "status": "released",
                    "term_name": "cardiac muscle cell"
                },
                "taxa": "Homo sapiens",
                "treatments": [
                    {
                        "@id": "/treatments/98ba0c5c-8005-41bc-bcbb-6c6eff41af4e/",
                        "purpose": "antagonist",
                        "status": "released",
                        "summary": "Treatment of 4 μM GSK3 inhibition for 7 days",
                        "treatment_term_name": "GSK3 inhibition"
                    }
                ]
            },
            {
                "@id": "/in-vitro-systems/IGVFSM7542AMUP/",
                "accession": "IGVFSM7542AMUP",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "status": "released",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "status": "released",
                "summary": "GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 28 days, male, Homo sapiens",
                "targeted_sample_term": {
                    "@id": "/sample-terms/CL_0000746/",
                    "status": "released",
                    "term_name": "cardiac muscle cell"
                },
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/in-vitro-systems/IGVFSM6721GJUT/",
                "accession": "IGVFSM6721GJUT",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "status": "released",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "status": "released",
                "summary": "GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 28 days, male, Homo sapiens",
                "targeted_sample_term": {
                    "@id": "/sample-terms/CL_0000746/",
                    "status": "released",
                    "term_name": "cardiac muscle cell"
                },
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/in-vitro-systems/IGVFSM9734OHZN/",
                "accession": "IGVFSM9734OHZN",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "status": "released",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "status": "released",
                "summary": "GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 28 days, male, Homo sapiens treated with 4 μM GSK3 inhibition for 7 days",
                "targeted_sample_term": {
                    "@id": "/sample-terms/CL_0000746/",
                    "status": "released",
                    "term_name": "cardiac muscle cell"
                },
                "taxa": "Homo sapiens",
                "treatments": [
                    {
                        "@id": "/treatments/98ba0c5c-8005-41bc-bcbb-6c6eff41af4e/",
                        "purpose": "antagonist",
                        "status": "released",
                        "summary": "Treatment of 4 μM GSK3 inhibition for 7 days",
                        "treatment_term_name": "GSK3 inhibition"
                    }
                ]
            },
            {
                "@id": "/in-vitro-systems/IGVFSM9140ULKM/",
                "accession": "IGVFSM9140ULKM",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "status": "released",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "status": "released",
                "summary": "GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 28 days, male, Homo sapiens treated with 4 μM GSK3 inhibition for 7 days",
                "targeted_sample_term": {
                    "@id": "/sample-terms/CL_0000746/",
                    "status": "released",
                    "term_name": "cardiac muscle cell"
                },
                "taxa": "Homo sapiens",
                "treatments": [
                    {
                        "@id": "/treatments/98ba0c5c-8005-41bc-bcbb-6c6eff41af4e/",
                        "purpose": "antagonist",
                        "status": "released",
                        "summary": "Treatment of 4 μM GSK3 inhibition for 7 days",
                        "treatment_term_name": "GSK3 inhibition"
                    }
                ]
            }
        ],
        "status": "released",
        "summary": "RNA-seq: transcriptome alignments"
    },
    "file_size": 2481896958,
    "filtered": true,
    "gene_list_for": [],
    "href": "/alignment-files/IGVFFI8503OKYN/@@download/IGVFFI8503OKYN.bam",
    "input_file_for": [
        "/tabular-files/IGVFFI9384YMLX/"
    ],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/charles-gersbach/",
        "title": "Charles Gersbach, Duke"
    },
    "loci_list_for": [],
    "md5sum": "bdcd79a5f0e34113f579662cae89cac9",
    "read_count": 54569895,
    "redacted": false,
    "reference_files": [
        "/reference-files/IGVFFI6815WBWB/"
    ],
    "release_timestamp": "2024-12-10T00:24:35.375752+00:00",
    "s3_uri": "s3://igvf-files/2024/10/25/c48ab6b3-a377-4f96-a3ab-9b1d25bb7d19/IGVFFI8503OKYN.bam",
    "schema_version": "12",
    "status": "released",
    "submitted_by": {
        "@id": "/users/3782ce69-0e9f-4b46-91f9-4578139785c7/",
        "title": "Ruhi Rai"
    },
    "submitted_file_name": "/datacommons/gersbachlab/Ruhi/IGVFdatasubmission/TaylorHiCAR/RNA/chir4um.3.rna.star2.Aligned.out.sorted.bam",
    "summary": "GRCh38 filtered transcriptome alignments",
    "upload_status": "validated",
    "uuid": "c48ab6b3-a377-4f96-a3ab-9b1d25bb7d19"
}