IGVFFI0268IMDO

{
    "@context": "/terms/",
    "@id": "/configuration-files/IGVFFI0268IMDO/",
    "@type": [
        "ConfigurationFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI0268IMDO",
    "aliases": [
        "ansuman-satpathy:seqspec_igvf_exp10_rna_10x1_NGS2"
    ],
    "assay_titles": [
        "10x multiome with MULTI-seq"
    ],
    "audit": {},
    "award": {
        "@id": "/awards/HG012076/",
        "component": "mapping"
    },
    "checkfiles_version": "v16",
    "content_md5sum": "76813c357a56930814074efb32c4eb9b",
    "content_type": "seqspec",
    "creation_timestamp": "2024-09-18T02:22:08.884764+00:00",
    "file_format": "yaml",
    "file_set": {
        "@id": "/measurement-sets/IGVFDS2246RAZO/",
        "accession": "IGVFDS2246RAZO",
        "file_set_type": "experimental data",
        "samples": [
            {
                "@id": "/multiplexed-samples/IGVFSM4547BFMA/",
                "accession": "IGVFSM4547BFMA",
                "classifications": [
                    "cell line",
                    "multiplexed sample"
                ],
                "disease_terms": [],
                "modifications": [
                    {
                        "@id": "/crispr-modifications/b4bc725a-8eeb-4180-9789-bece3516c0c1/",
                        "modality": "interference",
                        "status": "released",
                        "summary": "CRISPRi Sp-dCas9-KOX1-KRAB"
                    }
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0001253/",
                        "status": "released",
                        "term_name": "THP-1"
                    },
                    {
                        "@id": "/sample-terms/EFO_0002067/",
                        "status": "released",
                        "term_name": "K562"
                    },
                    {
                        "@id": "/sample-terms/EFO_0002796/",
                        "status": "released",
                        "term_name": "Jurkat"
                    },
                    {
                        "@id": "/sample-terms/NTR_0000753/",
                        "status": "released",
                        "term_name": "TeloHAEC"
                    }
                ],
                "status": "released",
                "summary": "multiplexed sample: Jurkat cell line, male, Homo sapiens treated with 100 ng/mL phorbol 13-acetate 12-myristate for 4 hours, 5 μg/mL T-cell surface glycoprotein CD3 gamma chain for 4 hours; K562 cell line, female, Homo sapiens modified with CRISPRi Sp-dCas9-KOX1-KRAB; ... and 8 more samples",
                "taxa": "Homo sapiens",
                "treatments": [
                    {
                        "@id": "/treatments/42b3c61d-38de-4bd2-bb39-33c125a417cb/",
                        "purpose": "stimulation",
                        "status": "released",
                        "summary": "Treatment of 100 ng/mL phorbol 13-acetate 12-myristate for 4 hours",
                        "treatment_term_name": "phorbol 13-acetate 12-myristate"
                    },
                    {
                        "@id": "/treatments/df02c0d4-f796-4f77-bfbc-388cdbfcc615/",
                        "purpose": "stimulation",
                        "status": "released",
                        "summary": "Treatment of 5 μg/mL T-cell surface glycoprotein CD3 gamma chain for 4 hours",
                        "treatment_term_name": "T-cell surface glycoprotein CD3 gamma chain"
                    }
                ]
            }
        ],
        "status": "released",
        "summary": "interference single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)"
    },
    "file_size": 1397,
    "gene_list_for": [],
    "href": "/configuration-files/IGVFFI0268IMDO/@@download/IGVFFI0268IMDO.yaml.gz",
    "input_file_for": [],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/ansuman-satpathy/",
        "title": "Ansuman Satpathy, Stanford"
    },
    "loci_list_for": [],
    "md5sum": "a14e7c5c8e86c168628d0cc8fcb75139",
    "quality_metrics": [],
    "release_timestamp": "2025-03-07T01:13:53.954910+00:00",
    "s3_uri": "s3://igvf-files/2024/09/18/00e16c3e-5f38-482d-807f-4822a38a032b/IGVFFI0268IMDO.yaml.gz",
    "schema_version": "7",
    "seqspec_of": [
        "/sequence-files/IGVFFI5700XSJN/",
        "/sequence-files/IGVFFI2521NNNE/",
        "/sequence-files/IGVFFI6544ROSI/",
        "/sequence-files/IGVFFI5532UPHV/"
    ],
    "status": "released",
    "submitted_by": {
        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
        "title": "Christopher Mcginnis"
    },
    "submitted_file_name": "/home/users/cmcginni/igvf_utils_out/seqspec/igvf_exp10_rna_10x1_NGS2_rna_seqspec.yaml.gz",
    "summary": "seqspec of IGVFFI5700XSJN, IGVFFI2521NNNE, IGVFFI6544ROSI, IGVFFI5532UPHV",
    "upload_status": "validated",
    "uuid": "00e16c3e-5f38-482d-807f-4822a38a032b",
    "validate_onlist_files": true
}