IGVFDS1127IRGQ

{
    "@context": "/terms/",
    "@id": "/analysis-sets/IGVFDS1127IRGQ/",
    "@type": [
        "AnalysisSet",
        "FileSet",
        "Item"
    ],
    "accession": "IGVFDS1127IRGQ",
    "aliases": [
        "charles-gersbach:analysis-set-crispra-region3-0umET1-ipsc-cm-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": "2024-11-07T15:46:36.644542+00:00",
    "donors": [
        {
            "@id": "/human-donors/IGVFDO3212TBUN/",
            "accession": "IGVFDO3212TBUN",
            "aliases": [
                "charles-gersbach:human-donor-WTC11"
            ],
            "sex": "male",
            "status": "released",
            "taxa": "Homo sapiens"
        }
    ],
    "file_set_type": "intermediate analysis",
    "files": [
        {
            "@id": "/matrix-files/IGVFFI2932NURH/",
            "accession": "IGVFFI2932NURH",
            "aliases": [
                "charles-gersbach:matrix-file-crispra-region3-0umET1-ipsc-cm-targeted-hicar-rep3-mcool"
            ],
            "content_type": "contact matrix",
            "creation_timestamp": "2024-11-07T16:07:04.481836+00:00",
            "file_format": "mcool",
            "file_size": 37588553,
            "href": "/matrix-files/IGVFFI2932NURH/@@download/IGVFFI2932NURH.mcool",
            "s3_uri": "s3://igvf-files/2024/11/07/5f853961-34e6-486d-a11d-8f7349f68acb/IGVFFI2932NURH.mcool",
            "status": "released",
            "submitted_file_name": "/hpc/group/gersbachlab/tda17/IGVF_data_files/HiCAR/output/cooler/human/VP64_TA448_3_ctrl.1000.mcool",
            "upload_status": "validated"
        },
        {
            "@id": "/matrix-files/IGVFFI6024SAQN/",
            "accession": "IGVFFI6024SAQN",
            "aliases": [
                "charles-gersbach:matrix-file-crispra-region3-0umET1-ipsc-cm-targeted-hicar-rep3-cool"
            ],
            "content_type": "contact matrix",
            "creation_timestamp": "2024-11-07T16:07:02.644534+00:00",
            "file_format": "cool",
            "file_size": 8505246,
            "href": "/matrix-files/IGVFFI6024SAQN/@@download/IGVFFI6024SAQN.cool",
            "s3_uri": "s3://igvf-files/2024/11/07/b831d071-0de6-4937-aaa0-0013e5777bc2/IGVFFI6024SAQN.cool",
            "status": "released",
            "submitted_file_name": "/hpc/group/gersbachlab/tda17/IGVF_data_files/HiCAR/output/cooler/human/VP64_TA448_3_ctrl.1000.cool",
            "upload_status": "validated"
        }
    ],
    "functional_assay_mechanisms": [],
    "input_file_sets": [
        {
            "@id": "/measurement-sets/IGVFDS8359JYZP/",
            "accession": "IGVFDS8359JYZP",
            "aliases": [
                "charles-gersbach:measurement-set-crispra-region3-0umET1-ipsc-cm-targeted-hicar-rep3"
            ],
            "file_set_type": "experimental data",
            "status": "released"
        }
    ],
    "input_for": [
        "/analysis-sets/IGVFDS9720UJIP/",
        "/analysis-sets/IGVFDS4356CHAN/"
    ],
    "lab": {
        "@id": "/labs/charles-gersbach/",
        "title": "Charles Gersbach, Duke"
    },
    "protocols": [
        "https://www.protocols.io/view/hicar-for-human-ipsc-cm-following-enhancer-perturb-3byl49mdrgo5"
    ],
    "release_timestamp": "2024-12-13T19:43:43.540980+00:00",
    "sample_summary": "GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell, at 1 time point(s) post change, transfected with a guide library",
    "samples": [
        {
            "@id": "/in-vitro-systems/IGVFSM5123PXCO/",
            "@type": [
                "InVitroSystem",
                "Biosample",
                "Sample",
                "Item"
            ],
            "accession": "IGVFSM5123PXCO",
            "aliases": [
                "charles-gersbach:in-vitro-system-crispra-region3-0umET1-ipsc-cm-targeted-hicar-rep3"
            ],
            "classifications": [
                "differentiated cell specimen"
            ],
            "construct_library_sets": [
                "/construct-library-sets/IGVFDS8010GDNS/"
            ],
            "sample_terms": [
                {
                    "@id": "/sample-terms/EFO_0009747/",
                    "@type": [
                        "SampleTerm",
                        "OntologyTerm",
                        "Item"
                    ],
                    "aliases": [
                        "igvf:WTC11"
                    ],
                    "status": "released",
                    "summary": "GM25256 (WTC-11)",
                    "term_name": "GM25256 (WTC-11)"
                }
            ],
            "status": "released",
            "summary": "GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 42 days, male, Homo sapiens transfected with a guide library",
            "targeted_sample_term": {
                "@id": "/sample-terms/CL_0000746/",
                "status": "released",
                "term_name": "cardiac muscle cell"
            },
            "taxa": "Homo sapiens"
        }
    ],
    "schema_version": "9",
    "status": "released",
    "submitted_by": {
        "@id": "/users/3782ce69-0e9f-4b46-91f9-4578139785c7/",
        "title": "Ruhi Rai"
    },
    "submitted_files_timestamp": "2024-11-07T16:07:02.644534+00:00",
    "summary": "HiCAR: contact matrix",
    "uuid": "0031fc49-5703-48d8-9455-90bd43a6a528",
    "workflows": [
        {
            "@id": "/workflows/IGVFWF1709OHTV/",
            "accession": "IGVFWF1709OHTV",
            "name": "nf-core HiCAR Pipeline",
            "status": "released",
            "uniform_pipeline": false
        }
    ]
}