{"lab": {"display_title": "Karen Adelman, HARVARD", "uuid": "0aae4b45-b6de-45da-84e6-738667c36f03", "@id": "/labs/karen-adelman-lab/", "status": "current", "title": "Karen Adelman, HARVARD", "@type": ["Lab", "Item"], "correspondence": [{"contact_email": "a2FyZW5fYWRlbG1hbkBobXMuaGFydmFyZC5lZHU=", "@id": "/users/59826b1d-7f8b-484f-bfba-8e29f57169d2/", "display_title": "Karen Adelman"}], "pi": {"error": "no view permissions"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.0aae4b45-b6de-45da-84e6-738667c36f03"]}}, "award": {"uuid": "619535d9-ec49-4f36-9cad-a0887cf535cb", "project": "4DN", "@type": ["Award", "Item"], "center_title": "TCPA - Adelman", "display_title": "ELUCIDATING THE ROLE OF NASCENT RNA IN ENHANCER-PROMOTER COMMUNICATION AND THREE-DIMENSIONAL GENOME ORGANIZATION", "@id": "/awards/TCPA-2017-01/", "status": "current", "name": "TCPA-2017-01", "description": "TCPA: \u200bThere is a clear relationship between nuclear genome organization and the regulation of gene expression, and a great deal of effort has been dedicated to defining the effects of genome architecture on gene activity. Herein, we propose to complement this work by approaching the relationship from the other direction. We will ask: how does nascent RNA synthesis from enhancers and promoters impact genome organization? Our specific hypothesis is that nascent RNA plays a central role in stabilizing transient promoter-enhancer contacts that occur within topologically-associated domains (TADs), and thus facilitates the communication between distal cis-regulatory regions. This idea is supported by recent demonstrations that nascent RNA can serve as a platform for the recruitment and retention of transcription factors and epigenetic modifiers. Accordingly, several studies have suggested roles for specific enhancer RNAs in the establishment or maintenance of three-dimensional (3D) enhancer-promoter loops and associated gene activity. However, a full appreciation for the role of nascent RNA synthesis on \ngenome structure will require a more rigorous, coordinated and comprehensive approach than has been carried out to date. We therefore propose a collaborative project within the framework of the 4D Nucleome network to address how enhancer and gene transcription impact chromosome organization.", "pi": {"error": "no view permissions"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "md5sum": "6a82d453de91b42e0272b3c4b147f707", "status": "released", "aliases": ["karen-adelman-lab:filefastq_EpiLCdiff_H3K27ac_00hr_B1_T1_f1_r2"], "filename": "LIB037440_CHS00139026_R2.fastq.gz", "accession": "4DNFIS69JZJQ", "file_size": 1507386506, "file_type": "reads", "paired_end": "2", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "display_title": "fastq", "@type": ["FileFormat", "Item"], "status": "released", "file_format": "fastq", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "date_created": "2021-01-22T00:30:27.743401+00:00", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2023-08-07T21:39:02.972474+00:00"}, "related_files": [{"file": {"uuid": "df86d5b4-109d-44d5-a7e8-3cd948e4e042", "display_title": "4DNFIKEJZ9MH.fastq.gz", "@id": "/files-fastq/4DNFIKEJZ9MH/", "accession": "4DNFIKEJZ9MH", "status": "released", "@type": ["FileFastq", "File", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "relationship_type": "paired with"}], "content_md5sum": "a1d75124e239ec577ec5b39f501394e7", "public_release": "2023-06-28", "quality_metric": {"display_title": "QualityMetricFastqc from 2021-01-24", "overall_quality_status": "PASS", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIS69JZJQ/fastqc_report.html", "Sequence length": "42", "@id": "/quality-metrics-fastqc/3e78e4a7-71ca-4c4a-bb14-7ac17f39db1c/", "status": "released", "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "Total Sequences": 56004455, "uuid": "3e78e4a7-71ca-4c4a-bb14-7ac17f39db1c", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "schema_version": "2", "file_first_line": "@NB501807:305:HGLMMBGX9:1:11101:6851:1049 2:N:0:GTTTCG", "project_release": "2023-06-28", "contributing_labs": [{"display_title": "Joanna Wysocka, STANFORD", "@id": "/labs/joanna-wysocka-lab/", "@type": ["Lab", "Item"], "status": "current", "uuid": "88ba2aa9-321a-43a5-af1e-75fca4236907", "correspondence": [{"contact_email": "d3lzb2NrYUBzdGFuZm9yZC5lZHU=", "@id": "/users/1cc9469d-ff0c-4ef0-b0c7-5ed4d0966a13/", "display_title": "Joanna Wysocka"}], "pi": {"error": "no view permissions"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.88ba2aa9-321a-43a5-af1e-75fca4236907"]}}], "file_classification": "raw file", "@id": "/files-fastq/4DNFIS69JZJQ/", "@type": ["FileFastq", "File", "Item"], "uuid": "ac60586b-160a-485e-9637-f706dddd933f", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "4DNFIS69JZJQ.fastq.gz", "external_references": [], "experiments": [{"display_title": "ChIP-seq against H3K27ac (mouse) on F121-9-CASTx129 (Tier 2) - 4DNEXMTUU2CL", "status": "released", "@type": ["ExperimentSeq", "Experiment", "Item"], "@id": "/experiments-seq/4DNEXMTUU2CL/", "uuid": "4c1b5faf-83a9-4aa7-9ef8-2a289e2a4889", "accession": "4DNEXMTUU2CL", "biosample": {"@type": ["Biosample", "Item"], "uuid": "46427337-b293-4b29-abcb-7eca6d73fbb1", "status": "released", "accession": "4DNBSYI7H1LC", "biosource_summary": "F121-9-CASTx129 (Tier 2)", "@id": "/biosamples/4DNBSYI7H1LC/", "treatments_summary": "None", "display_title": "4DNBSYI7H1LC", "modifications_summary": "None", "biosource": [{"@id": "/biosources/4DNSRMG5APUM/", "cell_line_tier": "Tier 2", "status": "released", "display_title": "F121-9-CASTx129 (Tier 2) - 4DNSRMG5APUM", "@type": ["Biosource", "Item"], "uuid": "f01caf67-dd73-40ae-9476-940f0762b9c2", "biosource_type": "stem cell derived cell line", "tissue": {"term_name": "stem cell", "term_id": "CL:0000034", "status": "released", "@id": "/ontology-terms/CL:0000034/", "preferred_name": "stem cell", "display_title": "stem cell", "@type": ["OntologyTerm", "Item"], "uuid": "082f5be3-3617-4d3e-9ee9-78df53a71802", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "individual": {"display_title": "4DNINSF32UE9", "@type": ["IndividualMouse", "Individual", "Item"], "@id": "/individuals-mouse/4DNINSF32UE9/", "uuid": "cade1337-728d-4b5d-99f5-ed08b621cd7b", "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "modifications": [], "cell_line": {"preferred_name": "F121-9-CASTx129", "@type": ["OntologyTerm", "Item"], "term_name": "F121-9-CASTx129", "display_title": "F121-9-CASTx129", "uuid": "111201bc-8535-4448-903e-854af460a233", "term_id": "4DN:0000002", "@id": "/ontology-terms/4DN:0000002/", "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "organism": {"status": "released", "uuid": "3413218c-3d86-498b-a0a2-9a406638e786", "@id": "/organisms/10090/", "display_title": "M. musculus", "name": "mouse", "scientific_name": "Mus musculus", "@type": ["Organism", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "cell_culture_details": [{"@type": ["BiosampleCellCulture", "Item"], "status": "released", "@id": "/biosample-cell-cultures/52987502-7cc2-44ff-98ee-01af7c32ca57/", "display_title": "BiosampleCellCulture from 2021-01-22", "in_vitro_differentiated": "No", "uuid": "52987502-7cc2-44ff-98ee-01af7c32ca57", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "experiment_type": {"uuid": "47a593da-c458-422a-a974-82b3302e89cb", "display_title": "ChIP-seq", "title": "ChIP-seq", "status": "released", "@id": "/experiment-types/chip-seq/", "@type": ["ExperimentType", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "experiment_sets": [{"uuid": "1397fc88-0e6c-4a2d-98fe-fcdf1f214890", "experimentset_type": "replicate", "@id": "/experiment-set-replicates/4DNESX1HTE4K/", "display_title": "4DNESX1HTE4K", "@type": ["ExperimentSetReplicate", "ExperimentSet", "Item"], "status": "released", "accession": "4DNESX1HTE4K", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "last_modified": {"date_modified": "2023-06-28T14:47:59.971978+00:00"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "file_type_detailed": "reads (fastq)", "track_and_facet_info": {"experimental_lab": "Karen Adelman, HARVARD", "experiment_type": "ChIP-seq", "experiment_bucket": "raw file", "assay_info": "H3K27ac (mouse)", "dataset": "ChIP-seq time course of EpiLC differentiation", "condition": "0 h", "replicate_info": "Biorep 1, Techrep 1", "biosource_name": "F121-9-CASTx129 (Tier 2)", "lab_name": "Karen Adelman, HARVARD"}, "title": "4DNFIS69JZJQ", "href": "/files-fastq/4DNFIS69JZJQ/@@download/4DNFIS69JZJQ.fastq.gz", "upload_key": "ac60586b-160a-485e-9637-f706dddd933f/4DNFIS69JZJQ.fastq.gz", "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/ac60586b-160a-485e-9637-f706dddd933f/4DNFIS69JZJQ.fastq.gz", "tsv_notes": "", "workflow_run_inputs": [{"uuid": "b2fac91a-c683-42f6-85b0-870d593ef3cc", "@id": "/workflow-runs-awsem/b2fac91a-c683-42f6-85b0-870d593ef3cc/", "display_title": "fastq-first-line v2 run 2021-01-26 00:36:30.378211", "status": "released", "@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "input_files": [{"workflow_argument_name": "fastq", "value": {"status": "released", "filename": "LIB037440_CHS00139026_R2.fastq.gz", "display_title": "4DNFIS69JZJQ.fastq.gz", "uuid": "ac60586b-160a-485e-9637-f706dddd933f", "@type": ["FileFastq", "File", "Item"], "@id": "/files-fastq/4DNFIS69JZJQ/", "accession": "4DNFIS69JZJQ", "file_format": {"@type": ["FileFormat", "Item"], "display_title": "fastq", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "status": "released", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"@type": ["Workflow", "Item"], "title": "Getting first line of fastq file", "uuid": "93a1a931-d55d-4623-adfb-0fa735daf6ae", "status": "released", "display_title": "Getting first line of fastq file - 4DNWFASTQFO1", "@id": "/workflows/4DNWFASTQFO1/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "output_files": [{"workflow_argument_name": "first_line"}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "bb809db3-f300-483a-9f38-a34e682b8574", "@id": "/workflow-runs-awsem/bb809db3-f300-483a-9f38-a34e682b8574/", "display_title": "md5 0.2.6 run 2021-01-24 16:36:48.039726", "status": "released", "@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "input_files": [{"workflow_argument_name": "input_file", "value": {"status": "released", "filename": "LIB037440_CHS00139026_R2.fastq.gz", "display_title": "4DNFIS69JZJQ.fastq.gz", "uuid": "ac60586b-160a-485e-9637-f706dddd933f", "@type": ["FileFastq", "File", "Item"], "@id": "/files-fastq/4DNFIS69JZJQ/", "accession": "4DNFIS69JZJQ", "file_format": {"@type": ["FileFormat", "Item"], "display_title": "fastq", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "status": "released", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"@type": ["Workflow", "Item"], "title": "md5 0.2.6", "uuid": "c77a117b-9a58-477e-aaa5-291a109a99f6", "status": "released", "display_title": "md5 0.2.6 - 4DNWF2HFF82B", "@id": "/workflows/4DNWF2HFF82B/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "output_files": [{"workflow_argument_name": "report"}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "0a9c10f7-3cb4-473f-aff1-2cb6881d4e0e", "@id": "/workflow-runs-awsem/0a9c10f7-3cb4-473f-aff1-2cb6881d4e0e/", "display_title": "fastqc v2 run 2021-01-24 16:36:51.700832", "status": "released", "@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "input_files": [{"workflow_argument_name": "input_fastq", "value": {"status": "released", "filename": "LIB037440_CHS00139026_R2.fastq.gz", "display_title": "4DNFIS69JZJQ.fastq.gz", "uuid": "ac60586b-160a-485e-9637-f706dddd933f", "@type": ["FileFastq", "File", "Item"], "@id": "/files-fastq/4DNFIS69JZJQ/", "accession": "4DNFIS69JZJQ", "file_format": {"@type": ["FileFormat", "Item"], "display_title": "fastq", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "status": "released", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"@type": ["Workflow", "Item"], "title": "FastQC v2", "uuid": "49e96b51-ed6c-4418-a693-d0e9f79adfa5", "status": "released", "display_title": "FastQC v2 - 4DNWFAEU2GB7", "@id": "/workflows/4DNWFAEU2GB7/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "output_files": [{"workflow_argument_name": "report_zip", "value_qc": {"uuid": "3e78e4a7-71ca-4c4a-bb14-7ac17f39db1c", "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "overall_quality_status": "PASS", "status": "released", "@id": "/quality-metrics-fastqc/3e78e4a7-71ca-4c4a-bb14-7ac17f39db1c/", "display_title": "QualityMetricFastqc from 2021-01-24", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIS69JZJQ/fastqc_report.html", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "b1fae98d-b0a8-445b-a32e-17d7b725841f", "@id": "/workflow-runs-awsem/b1fae98d-b0a8-445b-a32e-17d7b725841f/", "display_title": "encode-chipseq-aln-chip 2.1.6 run 2023-05-05 14:49:04.322592", "status": "released", "@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "input_files": [{"workflow_argument_name": "chip.blacklist", "value": {"status": "released", "filename": "mm10.blacklist.bed.gz", "display_title": "4DNFIZ3FBPK8.bed.gz", "uuid": "a32747a3-8a9e-4a9e-a7a1-4db0e8b65925", "@type": ["FileReference", "File", "Item"], "@id": "/files-reference/4DNFIZ3FBPK8/", "accession": "4DNFIZ3FBPK8", "file_format": {"@type": ["FileFormat", "Item"], "display_title": "bed", "uuid": "69f6d609-f2ac-4c82-9472-1a13331b5ce9", "file_format": "bed", "status": "released", "@id": "/file-formats/bed/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "chip.bowtie2_idx_tar", "value": {"status": "released", "filename": "mm10_no_alt_analysis_set_ENCODE.bowtie2Index.tar", "display_title": "4DNFI2493SDN.bowtie2Index.tar", "uuid": "63e22058-79c6-4e24-8231-ca4afac29dda", "@type": ["FileReference", "File", "Item"], "@id": "/files-reference/4DNFI2493SDN/", "accession": "4DNFI2493SDN", "file_format": {"@type": ["FileFormat", "Item"], "display_title": "uncompressed_bowtie2Index", "uuid": "ae164e66-4702-4647-91d6-0700c9f875c1", "file_format": "uncompressed_bowtie2Index", "status": "released", "@id": "/file-formats/uncompressed_bowtie2Index/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "chip.bwa_idx_tar", "value": {"status": "released", "filename": "mm10.bwaIndex.tar", "display_title": "4DNFIZ2PWCC2.bwaIndex.tar", "uuid": "f4b63d31-65d8-437f-a76a-6bedbb52ae6f", "@type": ["FileReference", "File", "Item"], "@id": "/files-reference/4DNFIZ2PWCC2/", "accession": "4DNFIZ2PWCC2", "file_format": {"@type": ["FileFormat", "Item"], "display_title": "uncompressed_bwaIndex", "uuid": "96809e57-4ccd-40b4-9fcb-ce27c4f16df9", "file_format": "uncompressed_bwaIndex", "status": "released", "@id": "/file-formats/uncompressed_bwaIndex/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "chip.chrsz", "value": {"status": "released", "filename": "mm10_no_alt.chrom.sizes", "display_title": "4DNFIBP173GC.chrom.sizes", "uuid": "be0a9819-d2ce-4422-be4b-234fb1677dd9", "@type": ["FileReference", "File", "Item"], "@id": "/files-reference/4DNFIBP173GC/", "accession": "4DNFIBP173GC", "file_format": {"@type": ["FileFormat", "Item"], "display_title": "chromsizes", "uuid": "d13d06cf-218e-4f61-55f0-93f226248b2c", "file_format": "chromsizes", "status": "released", "@id": "/file-formats/chromsizes/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "chip.fastqs", "value": {"status": "released", "filename": "LIB037440_CHS00139026_R1.fastq.gz", "display_title": "4DNFIKEJZ9MH.fastq.gz", "uuid": "df86d5b4-109d-44d5-a7e8-3cd948e4e042", "@type": ["FileFastq", "File", "Item"], "@id": "/files-fastq/4DNFIKEJZ9MH/", "accession": "4DNFIKEJZ9MH", "file_format": {"@type": ["FileFormat", "Item"], "display_title": "fastq", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "status": "released", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "chip.fastqs", "value": {"status": "released", "filename": "LIB037440_CHS00139026_R2.fastq.gz", "display_title": "4DNFIS69JZJQ.fastq.gz", "uuid": "ac60586b-160a-485e-9637-f706dddd933f", "@type": ["FileFastq", "File", "Item"], "@id": "/files-fastq/4DNFIS69JZJQ/", "accession": "4DNFIS69JZJQ", "file_format": {"@type": ["FileFormat", "Item"], "display_title": "fastq", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "status": "released", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "chip.ref_fa", "value": {"status": "released", "filename": "mm10_no_alt_analysis_set_ENCODE.fasta.gz", "display_title": "4DNFIC1NWMVJ.fasta.gz", "uuid": "58be6da0-9d39-484e-9f13-54a699913450", "@type": ["FileReference", "File", "Item"], "@id": "/files-reference/4DNFIC1NWMVJ/", "accession": "4DNFIC1NWMVJ", "file_format": {"@type": ["FileFormat", "Item"], "display_title": "compressed_fasta", "uuid": "d13d06cf-218e-4f61-55f0-92f226248b2c", "file_format": "compressed_fasta", "status": "released", "@id": "/file-formats/compressed_fasta/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"@type": ["Workflow", "Item"], "title": "Chip-seq data processing pipeline, Align-only, ChIP 2.1.6", "uuid": "212a9c91-25d6-473f-b56b-8dd93958c580", "status": "released", "display_title": "Chip-seq data processing pipeline, Align-only, ChIP 2.1.6 - 4DNWFSWU2244", "@id": "/workflows/4DNWFSWU2244/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "output_files": [{"workflow_argument_name": "chip.first_ta", "value": {"display_title": "4DNFIW2WQGIY.bed.gz", "@type": ["FileProcessed", "File", "Item"], "status": "released", "uuid": "4d649400-aced-41d2-b1aa-61aef99b94fa", "accession": "4DNFIW2WQGIY", "@id": "/files-processed/4DNFIW2WQGIY/", "file_format": {"@id": "/file-formats/bed/", "display_title": "bed", "uuid": "69f6d609-f2ac-4c82-9472-1a13331b5ce9", "file_format": "bed", "@type": ["FileFormat", "Item"], "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "chip.report", "value_qc": {"uuid": "6ac2d624-5600-4e6b-8330-a7109957c132", "@type": ["QualityMetricChipseqV2", "QualityMetric", "Item"], "overall_quality_status": "PASS", "status": "released", "@id": "/quality-metrics-chipseq-v2/6ac2d624-5600-4e6b-8330-a7109957c132/", "display_title": "QualityMetricChipseqV2 from 2023-05-05", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIW2WQGIY/qc_report.html", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "chip.qc_json", "value_qc": {"uuid": "6ac2d624-5600-4e6b-8330-a7109957c132", "@type": ["QualityMetricChipseqV2", "QualityMetric", "Item"], "overall_quality_status": "PASS", "status": "released", "@id": "/quality-metrics-chipseq-v2/6ac2d624-5600-4e6b-8330-a7109957c132/", "display_title": "QualityMetricChipseqV2 from 2023-05-05", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIW2WQGIY/qc_report.html", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "workflow_run_outputs": [], "@context": "/terms/", "aggregated-items": {}, "validation-errors": []}