{"lab": {"@id": "/labs/4dn-dcic-lab/", "display_title": "4DN DCIC, HMS", "title": "4DN DCIC, HMS", "uuid": "828cd4fe-ebb0-4b36-a94a-d2e3a36cc989", "status": "current", "@type": ["Lab", "Item"], "correspondence": [{"contact_email": "cGV0ZXJfcGFya0BobXMuaGFydmFyZC5lZHU=", "@id": "/users/fb287a31-e765-41c5-8c1d-665f8e9f025b/", "display_title": "Peter Park"}], "pi": {"error": "no view permissions"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.828cd4fe-ebb0-4b36-a94a-d2e3a36cc989"]}}, "award": {"project": "4DN", "@type": ["Award", "Item"], "description": "DCIC: The goals of the 4D Nucleome (4DN) Data Coordination and Integration Center (DCIC) are to collect, store, curate, display, and analyze data generated in the 4DN Network. We have assembled a team of investigators with a strong track record in analysis of chromatin interaction data, image processing and three-dimensional data visualization, integrative analysis of genomic and epigenomic data, data portal development, large-scale computing, and development of secure and flexible cloud technologies. In Aim 1, we will develop efficient submission pipelines for data and metadata from 4DN data production groups. We will define data/metadata requirements and quality metrics in conjunction with the production groups and ensure that high-quality, well- annotated data become available to the wider scientific community in a timely manner. In Aim 2, we will develop a user-friendly data portal for the broad scientific community. This portal will provide an easy-to-navigate interface for accessing raw and intermediate data files, allow for programmatic access via APIs, and will incorporate novel analysis and visualization tools developed by DCIC as well as other Network members. For computing and storage scalability and cost-effectiveness, significant efforts will be devoted to development and deployment of cloud-based technology. We will conduct tutorials and workshops to facilitate the use of 4DN data and tools by external investigators. In Aim 3, we will coordinate and assist in conducting integrative analysis of the multiple data types. These efforts will examine key questions in higher-order chromatin organization using both sequence and image data, and the tools and algorithms developed here will be incorporated into the data portal for use by other investigators. These three aims will ensure that the data generated in 4DN will have maximal impact for the scientific community.", "status": "current", "center_title": "DCIC - DCIC", "name": "1U01CA200059-01", "@id": "/awards/1U01CA200059-01/", "uuid": "b0b9c607-f8b4-4f02-93f4-9895b461334b", "display_title": "4D NUCLEOME NETWORK DATA COORDINATION AND INTEGRATION CENTER - PHASE I", "pi": {"error": "no view permissions"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "md5sum": "a441b8929e0e842f1e09b9463e4cd87a", "status": "released", "accession": "4DNFI91FZ151", "file_size": 1063458175, "file_type": "contact list-replicate", "description": "This is an output file of the Hi-C processing pipeline", "extra_files": [{"href": "/files-processed/4DNFI91FZ151/@@download/4DNFI91FZ151.pairs.gz.px2", "uuid": "586d4b67-96e5-410f-aca1-0ab478b330f6", "md5sum": "7651cd615143599007aa001e05fcd7c7", "status": "released", "filename": "4DNFI91FZ151", "accession": "4DNFI91FZ151", "file_size": 16841876, "upload_key": "586d4b67-96e5-410f-aca1-0ab478b330f6/4DNFI91FZ151.pairs.gz.px2", "file_format": {"uuid": "d13d06cf-218e-4f61-aaf0-91f226348b2c", "@type": ["FileFormat", "Item"], "@id": "/file-formats/pairs_px2/", "display_title": "pairs_px2", "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "file_format": {"file_format": "pairs", "display_title": "pairs", "status": "released", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b2c", "@type": ["FileFormat", "Item"], "@id": "/file-formats/pairs/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "date_created": "2018-11-27T15:22:42.209956+00:00", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2021-05-17T21:52:59.568380+00:00"}, "public_release": "2018-12-01", "quality_metric": {"@type": ["QualityMetricPairsqc", "QualityMetric", "Item"], "uuid": "4a170b0a-2c1b-45a1-9059-ee9b47719029", "Short cis reads (<20kb)": 22232825, "Cis reads (>20kb)": 31828859, "display_title": "QualityMetricPairsqc from 2018-11-28", "@id": "/quality-metrics-pairsqc/4a170b0a-2c1b-45a1-9059-ee9b47719029/", "status": "released", "Trans reads": 15723984, "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI91FZ151/pairsqc_report.html", "Total reads": 69785668, "quality_metric_summary": [{"title": "Filtered Reads", "value": "69785668", "numberType": "integer"}, {"title": "Cis reads (>20kb)", "value": "45.609", "tooltip": "Percent of filtered reads (=31.83m)", "numberType": "percent"}, {"title": "Short cis reads", "value": "31.859", "tooltip": "Percent of filtered reads (=22.23m)", "numberType": "percent"}, {"title": "Trans Reads", "value": "22.532", "tooltip": "Percent of filtered reads (=15.72m)", "numberType": "percent"}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "schema_version": "3", "genome_assembly": "GRCm38", "project_release": "2018-12-01", "contributing_labs": [{"status": "current", "uuid": "82ebab19-8a20-47c5-baeb-9a08a9524b10", "@id": "/labs/leonid-mirny-lab/", "display_title": "Leonid Mirny, MIT", "correspondence": [{"contact_email": "bGVvbmlkQG1pdC5lZHU=", "@id": "/users/f520d12a-e4c4-4774-a230-08d6dc4f5ef1/", "display_title": "Leonid Mirny"}], "@type": ["Lab", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.82ebab19-8a20-47c5-baeb-9a08a9524b10"]}, "pi": {"error": "no view permissions"}}, {"status": "current", "uuid": "06d4f485-ccf2-4332-b226-d8a05e5497db", "@id": "/labs/francois-spitz-lab/", "display_title": "Francois Spitz, PASTEUR", "correspondence": [{"contact_email": "ZnNwaXR6QHVjaGljYWdvLmVkdQ==", "@id": "/users/fbcf7895-3eba-4844-950f-855c02be74a2/", "display_title": "Francois Spitz"}], "@type": ["Lab", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.06d4f485-ccf2-4332-b226-d8a05e5497db"]}, "pi": {"error": "no view permissions"}}], "source_experiments": ["f8f6f331-45ca-432f-a8b4-427cd29b41f7"], "file_classification": "processed file", "@id": "/files-processed/4DNFI91FZ151/", "@type": ["FileProcessed", "File", "Item"], "uuid": "586d4b67-96e5-410f-aca1-0ab478b330f6", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "4DNFI91FZ151.pairs.gz", "external_references": [], "experiments": [{"uuid": "f8f6f331-45ca-432f-a8b4-427cd29b41f7", "@type": ["ExperimentHiC", "Experiment", "Item"], "accession": "4DNEXACCWMEN", "status": "released", "@id": "/experiments-hi-c/4DNEXACCWMEN/", "display_title": "TCC on hepatocyte with HindIII - 4DNEXACCWMEN", "biosample": {"status": "released", "@id": "/biosamples/4DNBSKLYYI1M/", "@type": ["Biosample", "Item"], "uuid": "46009f5f-7ead-4ccd-86c2-94b2a12a887e", "treatments_summary": "Tamoxifen treatment (10.0 mg/mL, 5.0d)", "display_title": "4DNBSKLYYI1M", "accession": "4DNBSKLYYI1M", "modifications_summary": "None", "biosource_summary": "hepatocyte", "biosource": [{"status": "released", "@type": ["Biosource", "Item"], "display_title": "hepatocyte - 4DNSRMDUDYLW", "uuid": "13e689ba-3ae3-4302-817b-3818bda0862f", "cell_line_tier": "Unclassified", "biosource_type": "primary cell", "@id": "/biosources/4DNSRMDUDYLW/", "cell_line": {"display_title": "hepatocyte", "uuid": "a1b0f241-64ca-47a4-b9b8-19c28b5bdedb", "preferred_name": "hepatocyte", "@id": "/ontology-terms/CL:0000182/", "term_id": "CL:0000182", "@type": ["OntologyTerm", "Item"], "status": "released", "term_name": "hepatocyte", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "organism": {"@id": "/organisms/10090/", "display_title": "M. musculus", "uuid": "3413218c-3d86-498b-a0a2-9a406638e786", "scientific_name": "Mus musculus", "@type": ["Organism", "Item"], "name": "mouse", "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "tissue": {"@type": ["OntologyTerm", "Item"], "display_title": "liver", "term_name": "liver", "preferred_name": "liver", "uuid": "111182bc-8535-4448-903e-854af460a233", "status": "released", "term_id": "UBERON:0002107", "@id": "/ontology-terms/UBERON:0002107/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "individual": {"status": "released", "@id": "/individuals-mouse/4DNIN2BSSV7N/", "@type": ["IndividualMouse", "Individual", "Item"], "display_title": "4DNIN2BSSV7N", "uuid": "5483ddbf-d764-43a8-9c83-049f6237c64d", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "experiment_sets": [{"experimentset_type": "replicate", "uuid": "d2047fda-59ad-452e-961a-bb0253555c94", "@type": ["ExperimentSetReplicate", "ExperimentSet", "Item"], "@id": "/experiment-set-replicates/4DNESIZMF58U/", "display_title": "4DNESIZMF58U", "accession": "4DNESIZMF58U", "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "experiment_type": {"title": "TCC", "@id": "/experiment-types/tcc/", "@type": ["ExperimentType", "Item"], "uuid": "e95e3626-aadc-464b-9ef0-0cdbea689744", "status": "released", "display_title": "TCC", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "digestion_enzyme": {"uuid": "2ace2f00-c913-4bac-a6ef-0b316bc2108e", "status": "released", "@id": "/enzymes/HindIII/", "display_title": "HindIII", "name": "HindIII", "@type": ["Enzyme", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "last_modified": {"date_modified": "2019-04-24T16:48:52.523233+00:00"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "file_type_detailed": "contact list-replicate (pairs)", "track_and_facet_info": {"experimental_lab": "Francois Spitz, PASTEUR", "experiment_type": "TCC", "experiment_bucket": "processed file", "assay_info": "HindIII", "dataset": "TCC on hepatocytes +/- NIPBL", "condition": "NIPBL KO", "replicate_info": "Biorep 2, Techrep 1", "biosource_name": "hepatocyte", "lab_name": "4DN DCIC, HMS"}, "title": "4DNFI91FZ151", "href": "/files-processed/4DNFI91FZ151/@@download/4DNFI91FZ151.pairs.gz", "upload_key": "586d4b67-96e5-410f-aca1-0ab478b330f6/4DNFI91FZ151.pairs.gz", "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/wfoutput/586d4b67-96e5-410f-aca1-0ab478b330f6/4DNFI91FZ151.pairs.gz", "tsv_notes": "", "workflow_run_inputs": [{"status": "released", "uuid": "e04dce63-2e04-4964-a8d9-61143cd3bd0f", "display_title": "pairsqc-single 0.2.6 run 2018-11-28 20:02:37.181664", "@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "@id": "/workflow-runs-awsem/e04dce63-2e04-4964-a8d9-61143cd3bd0f/", "input_files": [{"workflow_argument_name": "chromsizes", "value": {"uuid": "bd0784a5-2a3d-42f0-ba9c-d9b3dc0539c6", "display_title": "4DNFI3UBJ3HZ.chrom.sizes", "@type": ["FileReference", "File", "Item"], "accession": "4DNFI3UBJ3HZ", "filename": "mm10.mainonly.chrom.sizes", "@id": "/files-reference/4DNFI3UBJ3HZ/", "status": "released", "file_format": {"@type": ["FileFormat", "Item"], "@id": "/file-formats/chromsizes/", "status": "released", "uuid": "d13d06cf-218e-4f61-55f0-93f226248b2c", "file_format": "chromsizes", "display_title": "chromsizes", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "input_pairs", "value": {"uuid": "586d4b67-96e5-410f-aca1-0ab478b330f6", "display_title": "4DNFI91FZ151.pairs.gz", "@type": ["FileProcessed", "File", "Item"], "accession": "4DNFI91FZ151", "@id": "/files-processed/4DNFI91FZ151/", "status": "released", "file_format": {"@type": ["FileFormat", "Item"], "@id": "/file-formats/pairs/", "status": "released", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "pairs", "display_title": "pairs", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "output_files": [{"workflow_argument_name": "report", "value_qc": {"url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI91FZ151/pairsqc_report.html", "@id": "/quality-metrics-pairsqc/4a170b0a-2c1b-45a1-9059-ee9b47719029/", "uuid": "4a170b0a-2c1b-45a1-9059-ee9b47719029", "overall_quality_status": "PASS", "status": "released", "display_title": "QualityMetricPairsqc from 2018-11-28", "@type": ["QualityMetricPairsqc", "QualityMetric", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"uuid": "b8c533e0-f8c0-4510-b4a1-ac35158e27c3", "display_title": "PairsQC 0.2.6 - 4DNWFHB26CID", "@type": ["Workflow", "Item"], "status": "released", "@id": "/workflows/4DNWFHB26CID/", "title": "PairsQC 0.2.6", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"status": "released", "uuid": "cb013dc4-5cdc-48e3-84d9-2e30099f81da", "display_title": "hi-c-processing-pairs 0.2.6 run 2018-11-28 20:55:20.881505", "@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "@id": "/workflow-runs-awsem/cb013dc4-5cdc-48e3-84d9-2e30099f81da/", "input_files": [{"workflow_argument_name": "chromsizes", "value": {"uuid": "bd0784a5-2a3d-42f0-ba9c-d9b3dc0539c6", "display_title": "4DNFI3UBJ3HZ.chrom.sizes", "@type": ["FileReference", "File", "Item"], "accession": "4DNFI3UBJ3HZ", "filename": "mm10.mainonly.chrom.sizes", "@id": "/files-reference/4DNFI3UBJ3HZ/", "status": "released", "file_format": {"@type": ["FileFormat", "Item"], "@id": "/file-formats/chromsizes/", "status": "released", "uuid": "d13d06cf-218e-4f61-55f0-93f226248b2c", "file_format": "chromsizes", "display_title": "chromsizes", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "input_pairs", "value": {"uuid": "448f4577-cf37-4f5b-a38b-2170d0067a23", "display_title": "4DNFIMU8WWI7.pairs.gz", "@type": ["FileProcessed", "File", "Item"], "accession": "4DNFIMU8WWI7", "@id": "/files-processed/4DNFIMU8WWI7/", "status": "released", "file_format": {"@type": ["FileFormat", "Item"], "@id": "/file-formats/pairs/", "status": "released", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "pairs", "display_title": "pairs", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "input_pairs", "value": {"uuid": "586d4b67-96e5-410f-aca1-0ab478b330f6", "display_title": "4DNFI91FZ151.pairs.gz", "@type": ["FileProcessed", "File", "Item"], "accession": "4DNFI91FZ151", "@id": "/files-processed/4DNFI91FZ151/", "status": "released", "file_format": {"@type": ["FileFormat", "Item"], "@id": "/file-formats/pairs/", "status": "released", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "pairs", "display_title": "pairs", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "restriction_file", "value": {"uuid": "8e29e9ae-f13c-4a7b-9236-dba35a69bbff", "display_title": "4DNFI6V32T9J.txt", "@type": ["FileReference", "File", "Item"], "accession": "4DNFI6V32T9J", "filename": "MM10_HindIII.txt", "@id": "/files-reference/4DNFI6V32T9J/", "status": "released", "file_format": {"@type": ["FileFormat", "Item"], "@id": "/file-formats/juicer_format_restriction_site_file/", "status": "released", "uuid": "d13d06cf-218e-4f61-55f0-94f226248b2c", "file_format": "juicer_format_restriction_site_file", "display_title": "juicer_format_restriction_site_file", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "output_files": [{"workflow_argument_name": "merged_pairs", "value": {"display_title": "4DNFI3FKXTEO.pairs.gz", "@id": "/files-processed/4DNFI3FKXTEO/", "accession": "4DNFI3FKXTEO", "uuid": "465b62c0-9981-440c-97ab-693f916b7fdf", "status": "released", "@type": ["FileProcessed", "File", "Item"], "file_format": {"@type": ["FileFormat", "Item"], "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b2c", "display_title": "pairs", "status": "released", "@id": "/file-formats/pairs/", "file_format": "pairs", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "hic", "value": {"display_title": "4DNFI1GMTS2O.hic", "@id": "/files-processed/4DNFI1GMTS2O/", "accession": "4DNFI1GMTS2O", "uuid": "763c4466-dc62-4a5c-8f6e-e446d585c23c", "status": "released", "@type": ["FileProcessed", "File", "Item"], "file_format": {"@type": ["FileFormat", "Item"], "uuid": "d13d11cf-218e-4f61-bbf0-91f226248b2c", "display_title": "hic", "status": "released", "@id": "/file-formats/hic/", "file_format": "hic", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "mcool", "value": {"display_title": "4DNFIS1NI99O.mcool", "@id": "/files-processed/4DNFIS1NI99O/", "accession": "4DNFIS1NI99O", "uuid": "89d89779-8d66-4c2e-a98e-c20dfaf618bc", "status": "released", "@type": ["FileProcessed", "File", "Item"], "file_format": {"@type": ["FileFormat", "Item"], "uuid": "d13d06cf-218e-4f61-ccf0-91f226248b2c", "display_title": "mcool", "status": "released", "@id": "/file-formats/mcool/", "file_format": "mcool", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "cooler_normvector", "value": {"display_title": "4DNFI5XDZAIF.normvector.juicerformat.gz", "@id": "/files-processed/4DNFI5XDZAIF/", "accession": "4DNFI5XDZAIF", "uuid": "7c177bd0-bbd9-41ed-a9ca-e5ee59e37c7a", "status": "released", "@type": ["FileProcessed", "File", "Item"], "file_format": {"@type": ["FileFormat", "Item"], "uuid": "d13d06cf-218e-4f61-55f0-94f226118b2c", "display_title": "normvector_juicerformat", "status": "released", "@id": "/file-formats/normvector_juicerformat/", "file_format": "normvector_juicerformat", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"uuid": "c9e0e6f7-b0ed-4a42-9466-cadc2dd84df0", "display_title": "Generation of multiresolution Hi-C contact matrices from a set of contact lists 0.2.6 - 4DNWFTKI1QLK", "@type": ["Workflow", "Item"], "status": "released", "@id": "/workflows/4DNWFTKI1QLK/", "title": "Generation of multiresolution Hi-C contact matrices from a set of contact lists 0.2.6", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "workflow_run_outputs": [{"display_title": "hi-c-processing-bam 0.2.6 run 2018-11-27 15:22:42.395819", "@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "status": "released", "uuid": "4e709cc8-24b2-4904-a149-978e64f06dc5", "@id": "/workflow-runs-awsem/4e709cc8-24b2-4904-a149-978e64f06dc5/", "input_files": [{"workflow_argument_name": "chromsize", "value": {"filename": "mm10.mainonly.chrom.sizes", "display_title": "4DNFI3UBJ3HZ.chrom.sizes", "@type": ["FileReference", "File", "Item"], "uuid": "bd0784a5-2a3d-42f0-ba9c-d9b3dc0539c6", "accession": "4DNFI3UBJ3HZ", "@id": "/files-reference/4DNFI3UBJ3HZ/", "status": "released", "file_format": {"status": "released", "@id": "/file-formats/chromsizes/", "file_format": "chromsizes", "uuid": "d13d06cf-218e-4f61-55f0-93f226248b2c", "display_title": "chromsizes", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "input_bams", "value": {"display_title": "4DNFIHDPMEJC.bam", "@type": ["FileProcessed", "File", "Item"], "uuid": "4fdd5dc1-46ea-4b33-825e-54b3b0931d1f", "accession": "4DNFIHDPMEJC", "@id": "/files-processed/4DNFIHDPMEJC/", "status": "released", "file_format": {"status": "released", "@id": "/file-formats/bam/", "file_format": "bam", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b3c", "display_title": "bam", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "input_bams", "value": {"display_title": "4DNFI5ORX6XY.bam", "@type": ["FileProcessed", "File", "Item"], "uuid": "2302f186-93ab-43c8-a8ef-5306091c9a42", "accession": "4DNFI5ORX6XY", "@id": "/files-processed/4DNFI5ORX6XY/", "status": "released", "file_format": {"status": "released", "@id": "/file-formats/bam/", "file_format": "bam", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b3c", "display_title": "bam", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "input_bams", "value": {"display_title": "4DNFIJYPOLY3.bam", "@type": ["FileProcessed", "File", "Item"], "uuid": "4e4056dd-7e6a-4a7c-b5d7-9496f5c6287a", "accession": "4DNFIJYPOLY3", "@id": "/files-processed/4DNFIJYPOLY3/", "status": "released", "file_format": {"status": "released", "@id": "/file-formats/bam/", "file_format": "bam", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b3c", "display_title": "bam", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "input_bams", "value": {"display_title": "4DNFIVO2HYLP.bam", "@type": ["FileProcessed", "File", "Item"], "uuid": "48b38f7c-3c07-4152-a0b3-5c1b6127d412", "accession": "4DNFIVO2HYLP", "@id": "/files-processed/4DNFIVO2HYLP/", "status": "released", "file_format": {"status": "released", "@id": "/file-formats/bam/", "file_format": "bam", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b3c", "display_title": "bam", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "input_bams", "value": {"display_title": "4DNFI96KLO6W.bam", "@type": ["FileProcessed", "File", "Item"], "uuid": "fca44168-0741-4893-9750-326ae03fb9a1", "accession": "4DNFI96KLO6W", "@id": "/files-processed/4DNFI96KLO6W/", "status": "released", "file_format": {"status": "released", "@id": "/file-formats/bam/", "file_format": "bam", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b3c", "display_title": "bam", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "input_bams", "value": {"display_title": "4DNFI4EPUQLS.bam", "@type": ["FileProcessed", "File", "Item"], "uuid": "e5b6d297-25d0-422f-8f96-1ccb4792900c", "accession": "4DNFI4EPUQLS", "@id": "/files-processed/4DNFI4EPUQLS/", "status": "released", "file_format": {"status": "released", "@id": "/file-formats/bam/", "file_format": "bam", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b3c", "display_title": "bam", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "input_bams", "value": {"display_title": "4DNFIGLKTHY9.bam", "@type": ["FileProcessed", "File", "Item"], "uuid": "1efa544c-c073-4040-a851-89b53414dc2b", "accession": "4DNFIGLKTHY9", "@id": "/files-processed/4DNFIGLKTHY9/", "status": "released", "file_format": {"status": "released", "@id": "/file-formats/bam/", "file_format": "bam", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b3c", "display_title": "bam", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "input_bams", "value": {"display_title": "4DNFILD732CD.bam", "@type": ["FileProcessed", "File", "Item"], "uuid": "f41258ae-2c01-4b4c-aee1-0dbafc01674b", "accession": "4DNFILD732CD", "@id": "/files-processed/4DNFILD732CD/", "status": "released", "file_format": {"status": "released", "@id": "/file-formats/bam/", "file_format": "bam", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b3c", "display_title": "bam", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"uuid": "023bfb3e-9a8b-42b9-a9d4-216079526f68", "@type": ["Workflow", "Item"], "@id": "/workflows/4DNWFT69RBY4/", "display_title": "Hi-C Post-alignment Processing 0.2.6 - 4DNWFT69RBY4", "status": "released", "title": "Hi-C Post-alignment Processing 0.2.6", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "output_files": [{"workflow_argument_name": "annotated_bam", "value": {"@type": ["FileProcessed", "File", "Item"], "accession": "4DNFIAYVKC2H", "status": "released", "uuid": "38d37957-2595-4163-994c-9b7e66bbc6dd", "@id": "/files-processed/4DNFIAYVKC2H/", "display_title": "4DNFIAYVKC2H.bam", "file_format": {"uuid": "d13d06cf-218e-4f61-aaf0-91f226248b3c", "file_format": "bam", "status": "released", "@id": "/file-formats/bam/", "@type": ["FileFormat", "Item"], "display_title": "bam", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "filtered_pairs", "value": {"@type": ["FileProcessed", "File", "Item"], "accession": "4DNFI91FZ151", "status": "released", "uuid": "586d4b67-96e5-410f-aca1-0ab478b330f6", "@id": "/files-processed/4DNFI91FZ151/", "display_title": "4DNFI91FZ151.pairs.gz", "file_format": {"uuid": "d13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "pairs", "status": "released", "@id": "/file-formats/pairs/", "@type": ["FileFormat", "Item"], "display_title": "pairs", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "experiment_sets": [], "pairsqc_table": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI91FZ151/4DNFI91FZ151.plot_table.out", "source_experiment_sets": [{"status": "released", "@id": "/experiment-set-replicates/4DNESIZMF58U/", "uuid": "d2047fda-59ad-452e-961a-bb0253555c94", "@type": ["ExperimentSetReplicate", "ExperimentSet", "Item"], "display_title": "4DNESIZMF58U", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "@context": "/terms/", "aggregated-items": {"last_modified": [{"parent": "/experiments-hi-c/4DNEXACCWMEN/", "embedded_path": "experiments.last_modified", "item": {"date_modified": "2019-04-24T16:48:52.523233+00:00"}}, {"parent": "/files-processed/4DNFI91FZ151/", "embedded_path": "last_modified", "item": {"date_modified": "2021-05-17T21:52:59.568380+00:00"}}]}, "validation-errors": []}