IGVFDS7268XYPD

{
    "@context": "/terms/",
    "@id": "/analysis-sets/IGVFDS7268XYPD/",
    "@type": [
        "AnalysisSet",
        "FileSet",
        "Item"
    ],
    "accession": "IGVFDS7268XYPD",
    "aliases": [
        "charles-gersbach:analysis-set-crispra-region3-mouse-hl1-targeted-hicar-rep3-cool"
    ],
    "assay_titles": [
        "HiCAR"
    ],
    "audit": {},
    "award": {
        "@id": "/awards/HG012053/",
        "component": "functional characterization",
        "contact_pi": {
            "@id": "/users/5d329c0e-3ea9-49bf-9bb9-844a53a882c0/",
            "title": "Charles Gersbach"
        },
        "title": "High-Throughput Functional Annotation of Gene Regulatory Elements and Variants Critical to Complex Cellular Phenotypes"
    },
    "control_for": [],
    "creation_timestamp": "2024-11-07T15:46:56.031331+00:00",
    "donors": [
        {
            "@id": "/rodent-donors/IGVFDO1434JYIN/",
            "accession": "IGVFDO1434JYIN",
            "aliases": [
                "charles-gersbach:mouse-donor-HL-1"
            ],
            "sex": "female",
            "status": "released",
            "taxa": "Mus musculus"
        }
    ],
    "file_set_type": "intermediate analysis",
    "files": [
        {
            "@id": "/matrix-files/IGVFFI2377NFOC/",
            "accession": "IGVFFI2377NFOC",
            "aliases": [
                "charles-gersbach:matrix-file-crispra-region3-mouse-hl1-targeted-hicar-rep3-mcool"
            ],
            "content_type": "contact matrix",
            "creation_timestamp": "2024-11-07T16:07:41.476505+00:00",
            "file_format": "mcool",
            "file_size": 49639434,
            "href": "/matrix-files/IGVFFI2377NFOC/@@download/IGVFFI2377NFOC.mcool",
            "s3_uri": "s3://igvf-files/2024/11/07/6463fbb6-bf2b-4a32-b38c-f8a6ed0312dd/IGVFFI2377NFOC.mcool",
            "status": "released",
            "submitted_file_name": "/hpc/group/gersbachlab/tda17/IGVF_data_files/HiCAR/output/cooler/mouse/HL1_TA446_CA_3_ctrl.1000.mcool",
            "upload_status": "validated"
        },
        {
            "@id": "/matrix-files/IGVFFI1509VTYC/",
            "accession": "IGVFFI1509VTYC",
            "aliases": [
                "charles-gersbach:matrix-file-crispra-region3-mouse-hl1-targeted-hicar-rep3-cool"
            ],
            "content_type": "contact matrix",
            "creation_timestamp": "2024-11-07T16:07:39.782635+00:00",
            "file_format": "cool",
            "file_size": 10900127,
            "href": "/matrix-files/IGVFFI1509VTYC/@@download/IGVFFI1509VTYC.cool",
            "s3_uri": "s3://igvf-files/2024/11/07/aad36397-86bb-43fe-b1b7-64c81f0a30da/IGVFFI1509VTYC.cool",
            "status": "released",
            "submitted_file_name": "/hpc/group/gersbachlab/tda17/IGVF_data_files/HiCAR/output/cooler/mouse/HL1_TA446_CA_3_ctrl.1000.cool",
            "upload_status": "validated"
        }
    ],
    "functional_assay_mechanisms": [],
    "input_file_sets": [
        {
            "@id": "/measurement-sets/IGVFDS1873QGHK/",
            "accession": "IGVFDS1873QGHK",
            "aliases": [
                "charles-gersbach:measurement-set-crispra-region3-mouse-hl1-targeted-hicar-rep3"
            ],
            "file_set_type": "experimental data",
            "status": "released"
        }
    ],
    "input_for": [
        "/analysis-sets/IGVFDS0872LUHP/"
    ],
    "lab": {
        "@id": "/labs/charles-gersbach/",
        "title": "Charles Gersbach, Duke"
    },
    "protocols": [
        "https://www.protocols.io/view/hicar-for-mouse-hl-1-cells-following-enhancer-pert-36wgqn2yygk5"
    ],
    "release_timestamp": "2024-12-13T19:43:28.235300+00:00",
    "sample_summary": "HL-1 cell line, transfected with a guide library",
    "samples": [
        {
            "@id": "/in-vitro-systems/IGVFSM5017HPIL/",
            "@type": [
                "InVitroSystem",
                "Biosample",
                "Sample",
                "Item"
            ],
            "accession": "IGVFSM5017HPIL",
            "aliases": [
                "charles-gersbach:in-vitro-system-ccrispra-region3-mouse-hl1-targeted-hicar-rep3"
            ],
            "classifications": [
                "cell line"
            ],
            "construct_library_sets": [
                "/construct-library-sets/IGVFDS8122GWMC/"
            ],
            "sample_terms": [
                {
                    "@id": "/sample-terms/EFO_0022835/",
                    "@type": [
                        "SampleTerm",
                        "OntologyTerm",
                        "Item"
                    ],
                    "status": "released",
                    "summary": "HL-1",
                    "term_name": "HL-1"
                }
            ],
            "status": "released",
            "summary": "HL-1 cell line, female, Mus musculus C57BL/6J transfected with a guide library",
            "taxa": "Mus musculus"
        }
    ],
    "schema_version": "9",
    "status": "released",
    "submitted_by": {
        "@id": "/users/3782ce69-0e9f-4b46-91f9-4578139785c7/",
        "title": "Ruhi Rai"
    },
    "submitted_files_timestamp": "2024-11-07T16:07:39.782635+00:00",
    "summary": "HiCAR: contact matrix",
    "uuid": "242832d1-4db0-4f8b-9eb6-1762bd3f7d06",
    "workflows": [
        {
            "@id": "/workflows/IGVFWF1709OHTV/",
            "accession": "IGVFWF1709OHTV",
            "name": "nf-core HiCAR Pipeline",
            "status": "released",
            "uniform_pipeline": false
        }
    ]
}