{"lab": {"@type": ["Lab", "Item"], "@id": "/labs/steve-henikoff-lab/", "status": "current", "title": "Steve Henikoff, FREDHUTCH", "display_title": "Steve Henikoff, FREDHUTCH", "correspondence": [{"contact_email": "c3RldmVoQGZoY3JjLm9yZw==", "@id": "/users/bed386a9-7ee0-4ac0-ab50-741018edf928/", "display_title": "Steve Henikoff"}], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}, "pi": {"error": "no view permissions"}}, "award": {"center_title": "TCPA - Henikoff", "project": "4DN", "description": "TCPA: The 4D Nucleome project focuses on describing the 3D organization within the nucleus, with \nthe ultimate goal of understanding this organization in mechanistic terms. Our project uses novel methods for epigenomic profiling that detect 3D contact sites without cross-linking and with much higher resolution than current technologies. We recently introduced a novel strategy for chromatin profiling called CUT&RUN (Cleavage Under Targets & Release Using Nuclease), in which antibody-targeted controlled cleavage by micrococcal nuclease releases specific protein-DNA complexes into the supernatant for paired-end DNA sequencing. The method yields precise transcription factor (TF) profiles, yet is simple to perform and is inherently robust, with extremely low backgrounds requiring ~1/10 th the sequencing depth of chromatin immunoprecipitation (ChIP). CUT&RUN binding and cleavage occurs in situ, allowing for both quantitative high-resolution chromatin mapping and probing of the 3D chromatin environment. Together with our new native ChIP-seq protocol, we distinguish direct \u201canchor\u201d sites of a \nchromatin-bound protein from contacting sites without fixation, a kind of inference has not been possible with current methods of interrogating 3D chromatin architecture. We have two Aims: First, we will annotate the genome at high density for CTCF and cohesin sites, distinguishing between anchor and contact sites in 4D Nucleome cell lines. Second, we will continue development of a new replacement technology for 3D contact mapping, using CUT&RUN as a \u201cfront-end\u201d for proximity ligation (CUT&PASTE \u2013 Cleave Under Targets & Polish And Splice Touching Ends), building on our novel sci-HiC protocol for high-resolution TF-specific 3D interaction mapping. By annotating more contact sites in genomes and assigning the directionality of contacts, we move towards a mechanistic model of how topology within the nucleus is organized. Participation in the 4DN program would provide the opportunity to compare and integrate our CUT&RUN/PASTE datasets with 4DN datasets on common cell lines and differentiating tissues, ideally positioning consortium investigators to adopt our alternative strategy for their own 4DN efforts.", "@id": "/awards/TCPA-2017-04/", "status": "current", "display_title": "TETHERED NUCLEASE STRATEGIES FOR IN SITU MAPPING OF 3D NUCLEAR ORGANIZATION", "name": "TCPA-2017-04", "uuid": "4ddcac2d-72b6-40a7-ac68-67efba21a0d0", "@type": ["Award", "Item"], "pi": {"error": "no view permissions"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "status": "released", "aliases": ["henikoff_lab:cutnrun_180921_Hffc6_H2AZ_repset"], "accession": "4DNESIBPKCJK", "condition": "Active Motif 39113", "description": "Replicates CUT&RUN experiments on Hffc6 cells using H2A.Z (Active Motif 39113)", "date_created": "2019-06-20T22:09:32.202909+00:00", "submitted_by": {"error": "no view permissions"}, "dataset_label": "H2A.Z - HFFc6", "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2022-01-10T19:34:10.718979+00:00"}, "public_release": "2019-06-27", "replicate_exps": [{"bio_rep_no": 1, "tec_rep_no": 1, "replicate_exp": {"@id": "/experiments-seq/4DNEXLG3BBNB/", "status": "released", "@type": ["ExperimentSeq", "Experiment", "Item"], "display_title": "CUT&RUN against H2A.Z protein on HFFc6 (Tier 1) - 4DNEXLG3BBNB", "accession": "4DNEXLG3BBNB", "uuid": "2e7ff22d-3159-489f-914c-e359e28bb296", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"bio_rep_no": 2, "tec_rep_no": 1, "replicate_exp": {"@id": "/experiments-seq/4DNEXBDRKWDJ/", "status": "released", "@type": ["ExperimentSeq", "Experiment", "Item"], "display_title": "CUT&RUN against H2A.Z protein on HFFc6 (Tier 1) - 4DNEXBDRKWDJ", "accession": "4DNEXBDRKWDJ", "uuid": "8cb2968d-495e-4eff-be32-7ef81224af52", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"bio_rep_no": 3, "tec_rep_no": 1, "replicate_exp": {"@id": "/experiments-seq/4DNEXEJSRPHN/", "status": "released", "@type": ["ExperimentSeq", "Experiment", "Item"], "display_title": "CUT&RUN against H2A.Z protein on HFFc6 (Tier 1) - 4DNEXEJSRPHN", "accession": "4DNEXEJSRPHN", "uuid": "881857e1-6b7b-4d21-a0c5-badf7028df8a", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"bio_rep_no": 4, "tec_rep_no": 1, "replicate_exp": {"@id": "/experiments-seq/4DNEXU4GVYC8/", "status": "released", "@type": ["ExperimentSeq", "Experiment", "Item"], "display_title": "CUT&RUN against H2A.Z protein on HFFc6 (Tier 1) - 4DNEXU4GVYC8", "accession": "4DNEXU4GVYC8", "uuid": "1d278140-bcd2-4ef9-8abd-7273245fe0a8", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "schema_version": "2", "static_content": [{"content": {"@type": ["StaticSection", "UserContent", "Item"], "display_title": "NOTE: Processed files temporarily restricted", "content": "Due to an issue with the 4DN standardized pipeline for CUT&RUN some of the recently released files generated by this pipeline contain additional formatting or may have been incorrectly truncated.  This not only interferes with Higlass visualization but may also lead to incorrect interpretation of results. We have restricted access to the files as we work to correct these errors.  Please **use caution** if you have already obtained any of these files and plan to utilize them in your analyses.  ", "content_as_html": "<div class=\"markdown-container\"><p>Due to an issue with the 4DN standardized pipeline for CUT&amp;RUN some of the recently released files generated by this pipeline contain additional formatting or may have been incorrectly truncated.  This not only interferes with Higlass visualization but may also lead to incorrect interpretation of results. We have restricted access to the files as we work to correct these errors.  Please <strong>use caution</strong> if you have already obtained any of these files and plan to utilize them in your analyses.  </p></div>", "options": {"filetype": "md", "title_icon": "info", "collapsible": false, "default_open": true}, "@id": "/static-sections/7303263f-59c3-410b-a9f8-0f8ea16db2ea/", "award": {"status": "current", "uuid": "71171a4e-dca1-44cb-8375-fafd896c6923", "display_title": "4D NUCLEOME NETWORK DATA COORDINATION AND INTEGRATION CENTER - PHASE II", "@type": ["Award", "Item"], "@id": "/awards/2U01CA200059-06/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "status": "released", "lab": {"uuid": "828cd4fe-ebb0-4b36-a94a-d2e3a36cc989", "display_title": "4DN DCIC, HMS", "@id": "/labs/4dn-dcic-lab/", "status": "current", "@type": ["Lab", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.828cd4fe-ebb0-4b36-a94a-d2e3a36cc989"]}}, "filetype": "md", "title": "NOTE: Processed files temporarily restricted", "uuid": "7303263f-59c3-410b-a9f8-0f8ea16db2ea", "name": "item-page-headers.note.cut-n-run-pipeline-result-removed", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.owner", "userid.986b362f-4eb6-4a9c-8173-3ab267227777"]}}, "location": "header"}], "static_headers": [{"lab": {"@id": "/labs/4dn-dcic-lab/", "uuid": "828cd4fe-ebb0-4b36-a94a-d2e3a36cc989", "status": "current", "display_title": "4DN DCIC, HMS", "@type": ["Lab", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.828cd4fe-ebb0-4b36-a94a-d2e3a36cc989"]}}, "body": "\n**Data Use Guidelines:** This is a data set generated by the \n4DN Network and made freely available to the scientific \ncommunity. If you are intending to use these data for a \npublication, we ask that you please contact the data \ngenerating lab to discuss possible coordinated publication. \nIn your manuscript, please cite the 4DN White Paper \n([doi:10.1038/nature23884](https://doi.org/10.1038/nature23884)) \nand the 4DN Data Portal paper \n([doi:10.1038/s41467-022-29697-4](https://doi.org/10.1038/s41467-022-29697-4)), \nand please acknowledge the 4DN lab which generated the data. Please direct any questions to the [Data Coordination and Integration Center](mailto:support@4dnucleome.org).", "name": "item-page-headers.ExperimentSet.data-usage-guidelines", "award": {"status": "current", "@type": ["Award", "Item"], "uuid": "b0b9c607-f8b4-4f02-93f4-9895b461334b", "@id": "/awards/1U01CA200059-01/", "display_title": "4D NUCLEOME NETWORK DATA COORDINATION AND INTEGRATION CENTER - PHASE I", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "title": "Data Usage Guidelines", "status": "released", "aliases": [], "options": {"filetype": "md", "title_icon": "exclamation-circle", "collapsible": false, "default_open": true}, "date_created": "2018-08-06T03:09:55.543206+00:00", "section_type": "Item Page Header", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2022-05-09T09:31:34.537494+00:00"}, "schema_version": "2", "@id": "/static-sections/621e8359-3885-40ce-965d-91894aa7b758/", "@type": ["StaticSection", "UserContent", "Item"], "uuid": "621e8359-3885-40ce-965d-91894aa7b758", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.owner", "userid.986b362f-4eb6-4a9c-8173-3ab267228139"]}, "display_title": "Data Usage Guidelines", "external_references": [], "content": "\n**Data Use Guidelines:** This is a data set generated by the \n4DN Network and made freely available to the scientific \ncommunity. If you are intending to use these data for a \npublication, we ask that you please contact the data \ngenerating lab to discuss possible coordinated publication. \nIn your manuscript, please cite the 4DN White Paper \n([doi:10.1038/nature23884](https://doi.org/10.1038/nature23884)) \nand the 4DN Data Portal paper \n([doi:10.1038/s41467-022-29697-4](https://doi.org/10.1038/s41467-022-29697-4)), \nand please acknowledge the 4DN lab which generated the data. Please direct any questions to the [Data Coordination and Integration Center](mailto:support@4dnucleome.org).", "filetype": "md", "content_as_html": "<div class=\"markdown-container\"><p><strong>Data Use Guidelines:</strong> This is a data set generated by the \n4DN Network and made freely available to the scientific \ncommunity. If you are intending to use these data for a \npublication, we ask that you please contact the data \ngenerating lab to discuss possible coordinated publication. \nIn your manuscript, please cite the 4DN White Paper \n(<a href=\"https://doi.org/10.1038/nature23884\" rel=\"noopener noreferrer\" target=\"_blank\">doi:10.1038/nature23884</a>) \nand the 4DN Data Portal paper \n(<a href=\"https://doi.org/10.1038/s41467-022-29697-4\" rel=\"noopener noreferrer\" target=\"_blank\">doi:10.1038/s41467-022-29697-4</a>), \nand please acknowledge the 4DN lab which generated the data. Please direct any questions to the <a href=\"mailto:support@4dnucleome.org\">Data Coordination and Integration Center</a>.</p></div>"}], "processed_files": [], "project_release": "2019-06-27", "experiments_in_set": [{"uuid": "2e7ff22d-3159-489f-914c-e359e28bb296", "@id": "/experiments-seq/4DNEXLG3BBNB/", "display_title": "CUT&RUN against H2A.Z protein on HFFc6 (Tier 1) - 4DNEXLG3BBNB", "accession": "4DNEXLG3BBNB", "status": "released", "files": [{"display_title": "4DNFIKHI2XU9.fastq.gz", "upload_key": "47a31d2d-df24-43c9-b444-853229fd2a7e/4DNFIKHI2XU9.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/47a31d2d-df24-43c9-b444-853229fd2a7e/4DNFIKHI2XU9.fastq.gz", "paired_end": "1", "md5sum": "73b1c24e30d9c8e2e5e7bd483b090bf9", "href": "/files-fastq/4DNFIKHI2XU9/@@download/4DNFIKHI2XU9.fastq.gz", "file_size": 110803949, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIKHI2XU9", "file_classification": "raw file", "@id": "/files-fastq/4DNFIKHI2XU9/", "status": "released", "uuid": "47a31d2d-df24-43c9-b444-853229fd2a7e", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIDKL3MPN", "uuid": "bbaa2970-e824-40ea-9cc7-70bcbcadd547", "display_title": "4DNFIDKL3MPN.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFIDKL3MPN/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/bdceb32b-9602-47d2-b465-cac44660cd74/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIKHI2XU9/fastqc_report.html", "uuid": "bdceb32b-9602-47d2-b465-cac44660cd74", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 1, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIDKL3MPN.fastq.gz", "upload_key": "bbaa2970-e824-40ea-9cc7-70bcbcadd547/4DNFIDKL3MPN.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/bbaa2970-e824-40ea-9cc7-70bcbcadd547/4DNFIDKL3MPN.fastq.gz", "paired_end": "2", "md5sum": "132e4ca6d22a8e654735278a3034e510", "href": "/files-fastq/4DNFIDKL3MPN/@@download/4DNFIDKL3MPN.fastq.gz", "file_size": 112833128, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIDKL3MPN", "file_classification": "raw file", "@id": "/files-fastq/4DNFIDKL3MPN/", "status": "released", "uuid": "bbaa2970-e824-40ea-9cc7-70bcbcadd547", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIKHI2XU9", "uuid": "47a31d2d-df24-43c9-b444-853229fd2a7e", "display_title": "4DNFIKHI2XU9.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFIKHI2XU9/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/2255be4f-d562-46e3-9fce-5a3dbfbfc424/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIDKL3MPN/fastqc_report.html", "uuid": "2255be4f-d562-46e3-9fce-5a3dbfbfc424", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 1, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFI6EYB5UN.fastq.gz", "upload_key": "6d572540-16e8-4455-bec6-636780874297/4DNFI6EYB5UN.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/6d572540-16e8-4455-bec6-636780874297/4DNFI6EYB5UN.fastq.gz", "paired_end": "1", "md5sum": "e0aa64b9c636d278472f430c960f2a9f", "href": "/files-fastq/4DNFI6EYB5UN/@@download/4DNFI6EYB5UN.fastq.gz", "file_size": 17249851, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFI6EYB5UN", "file_classification": "raw file", "@id": "/files-fastq/4DNFI6EYB5UN/", "status": "released", "uuid": "6d572540-16e8-4455-bec6-636780874297", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFI9T5L6L8", "uuid": "fd2b8e14-3393-4066-a249-82e22f08c942", "display_title": "4DNFI9T5L6L8.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFI9T5L6L8/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/3334d153-d85e-49db-ae4a-44ae39c2d43d/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI6EYB5UN/fastqc_report.html", "uuid": "3334d153-d85e-49db-ae4a-44ae39c2d43d", "Total Sequences": 616542, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 1, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFI9T5L6L8.fastq.gz", "upload_key": "fd2b8e14-3393-4066-a249-82e22f08c942/4DNFI9T5L6L8.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/fd2b8e14-3393-4066-a249-82e22f08c942/4DNFI9T5L6L8.fastq.gz", "paired_end": "2", "md5sum": "047d835d9319feaadcefb23e86474ebd", "href": "/files-fastq/4DNFI9T5L6L8/@@download/4DNFI9T5L6L8.fastq.gz", "file_size": 17531598, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFI9T5L6L8", "file_classification": "raw file", "@id": "/files-fastq/4DNFI9T5L6L8/", "status": "released", "uuid": "fd2b8e14-3393-4066-a249-82e22f08c942", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFI6EYB5UN", "uuid": "6d572540-16e8-4455-bec6-636780874297", "display_title": "4DNFI6EYB5UN.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFI6EYB5UN/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/2aea903a-de03-4bf7-844b-fbc210bfb0c6/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI9T5L6L8/fastqc_report.html", "uuid": "2aea903a-de03-4bf7-844b-fbc210bfb0c6", "Total Sequences": 616542, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 1, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFINC9V2OJ.fastq.gz", "upload_key": "ead3036c-3123-4c09-a333-f0ff2ffd095e/4DNFINC9V2OJ.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/ead3036c-3123-4c09-a333-f0ff2ffd095e/4DNFINC9V2OJ.fastq.gz", "paired_end": "1", "md5sum": "c6d1f7f18e1a758edc40d5c37a07a2ba", "href": "/files-fastq/4DNFINC9V2OJ/@@download/4DNFINC9V2OJ.fastq.gz", "file_size": 110573126, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFINC9V2OJ", "file_classification": "raw file", "@id": "/files-fastq/4DNFINC9V2OJ/", "status": "released", "uuid": "ead3036c-3123-4c09-a333-f0ff2ffd095e", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIQMHPJVN", "uuid": "bfbb1b3d-ae6e-4b7f-9ce8-bc21bd0b2ecb", "display_title": "4DNFIQMHPJVN.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFIQMHPJVN/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/a2caa796-a97a-4545-8e21-6fc8ca6140ff/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFINC9V2OJ/fastqc_report.html", "uuid": "a2caa796-a97a-4545-8e21-6fc8ca6140ff", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 1, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIQMHPJVN.fastq.gz", "upload_key": "bfbb1b3d-ae6e-4b7f-9ce8-bc21bd0b2ecb/4DNFIQMHPJVN.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/bfbb1b3d-ae6e-4b7f-9ce8-bc21bd0b2ecb/4DNFIQMHPJVN.fastq.gz", "paired_end": "2", "md5sum": "eeeeff0d6b75fdb20f719f97b98f447d", "href": "/files-fastq/4DNFIQMHPJVN/@@download/4DNFIQMHPJVN.fastq.gz", "file_size": 112708557, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIQMHPJVN", "file_classification": "raw file", "@id": "/files-fastq/4DNFIQMHPJVN/", "status": "released", "uuid": "bfbb1b3d-ae6e-4b7f-9ce8-bc21bd0b2ecb", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFINC9V2OJ", "uuid": "ead3036c-3123-4c09-a333-f0ff2ffd095e", "display_title": "4DNFINC9V2OJ.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFINC9V2OJ/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/e7f3ba60-4af4-48b2-ae2c-a416b329a1ed/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIQMHPJVN/fastqc_report.html", "uuid": "e7f3ba60-4af4-48b2-ae2c-a416b329a1ed", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 1, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIA23VS1Y.fastq.gz", "upload_key": "51bb8a5c-0129-4040-8b19-c2678a48c936/4DNFIA23VS1Y.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/51bb8a5c-0129-4040-8b19-c2678a48c936/4DNFIA23VS1Y.fastq.gz", "paired_end": "1", "md5sum": "3dca7b24d9a39c5ab7947b0b2ee53911", "href": "/files-fastq/4DNFIA23VS1Y/@@download/4DNFIA23VS1Y.fastq.gz", "file_size": 14465366, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIA23VS1Y", "file_classification": "raw file", "@id": "/files-fastq/4DNFIA23VS1Y/", "status": "released", "uuid": "51bb8a5c-0129-4040-8b19-c2678a48c936", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIVQGLRKQ", "uuid": "3ae6533c-dce7-48b0-8579-cdcd44f27f88", "display_title": "4DNFIVQGLRKQ.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFIVQGLRKQ/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/2ada2596-daef-4111-b13a-27d9a841a7a3/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIA23VS1Y/fastqc_report.html", "uuid": "2ada2596-daef-4111-b13a-27d9a841a7a3", "Total Sequences": 517936, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 1, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIVQGLRKQ.fastq.gz", "upload_key": "3ae6533c-dce7-48b0-8579-cdcd44f27f88/4DNFIVQGLRKQ.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/3ae6533c-dce7-48b0-8579-cdcd44f27f88/4DNFIVQGLRKQ.fastq.gz", "paired_end": "2", "md5sum": "3e0fe088adc0524f563e30abb95d0cfb", "href": "/files-fastq/4DNFIVQGLRKQ/@@download/4DNFIVQGLRKQ.fastq.gz", "file_size": 14645237, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIVQGLRKQ", "file_classification": "raw file", "@id": "/files-fastq/4DNFIVQGLRKQ/", "status": "released", "uuid": "3ae6533c-dce7-48b0-8579-cdcd44f27f88", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIA23VS1Y", "uuid": "51bb8a5c-0129-4040-8b19-c2678a48c936", "display_title": "4DNFIA23VS1Y.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFIA23VS1Y/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/1ec22eee-327b-45d9-a63a-a7de5e04762f/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIVQGLRKQ/fastqc_report.html", "uuid": "1ec22eee-327b-45d9-a63a-a7de5e04762f", "Total Sequences": 517936, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 1, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}], "@type": ["ExperimentSeq", "Experiment", "Item"], "biosample": {"uuid": "48c61e88-a626-4c1c-b14b-c4d1b65a9bbe", "status": "released", "biosample_category": ["HFF (c6 or hTERT)"], "accession": "4DNBSW9W69YZ", "modifications_summary": "None", "@type": ["Biosample", "Item"], "biosample_type": "immortalized cells", "display_title": "4DNBSW9W69YZ", "@id": "/biosamples/4DNBSW9W69YZ/", "biosource_summary": "HFFc6 (Tier 1)", "treatments_summary": "None", "badges": [{"messages": ["Biosample missing doubling_number"], "badge": {"title": "Biosample Metadata Incomplete", "badge_classification": "Warning", "@id": "/badges/biosample-metadata-incomplete/", "display_title": "Biosample Metadata Incomplete", "badge_icon": "/static/img/badges/biosample-icon.svg", "description": "Biosample is missing metadata information required as part of the standards implemented by the 4DN Samples working group.", "warning": "Biosample Metadata Incomplete", "@type": ["Badge", "Item"], "status": "released", "uuid": "2b2cc7ff-b7a8-4138-9a6c-22884fc71690", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "biosource": [{"cell_line_tier": "Tier 1", "@type": ["Biosource", "Item"], "display_title": "HFFc6 (Tier 1) - 4DNSRC6ZVYVP", "biosource_type": "immortalized cell line", "accession": "4DNSRC6ZVYVP", "@id": "/biosources/4DNSRC6ZVYVP/", "status": "released", "uuid": "10aa2d32-9fd4-46ce-a585-827d8c7810c3", "tissue": {"term_name": "skin fibroblast", "uuid": "1a658f38-8dee-4ed2-92ca-c694b5cef902", "@type": ["OntologyTerm", "Item"], "preferred_name": "skin fibroblast", "status": "released", "display_title": "skin fibroblast", "term_id": "CL:0002620", "@id": "/ontology-terms/CL:0002620/", "slim_terms": [{"uuid": "111134bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0002416/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "integumental system", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "45d2b02e-130b-40db-8bf2-2288c6c57dcf", "@id": "/ontology-terms/CL:0000000/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "111119bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0000924/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "ectoderm", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "111188bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0002097/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "skin", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "72e16a19-eef3-46ca-a1b8-20e646e69675", "@id": "/ontology-terms/GO:0005623/", "status": "current", "@type": ["OntologyTerm", "Item"], "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "organism": {"scientific_name": "Homo sapiens", "@id": "/organisms/9606/", "display_title": "H. sapiens", "uuid": "7745b647-ff15-4ff3-9ced-b897d4e2983c", "@type": ["Organism", "Item"], "status": "released", "name": "human", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "cell_line": {"term_id": "EFO:0009318", "display_title": "HFFc6", "@id": "/ontology-terms/EFO:0009318/", "term_name": "HFFc6", "uuid": "426ef4ff-c1f7-486e-bfcf-612ebb52c8b0", "synonyms": ["HFF-hTERT clone 6"], "status": "released", "@type": ["OntologyTerm", "Item"], "preferred_name": "HFFc6", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "slim_terms": [{"status": "current", "@id": "/ontology-terms/GO:0005623/", "@type": ["OntologyTerm", "Item"], "uuid": "72e16a19-eef3-46ca-a1b8-20e646e69675", "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"status": "released", "@id": "/ontology-terms/CL:0000000/", "@type": ["OntologyTerm", "Item"], "uuid": "45d2b02e-130b-40db-8bf2-2288c6c57dcf", "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}]}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "cell_culture_details": [{"@id": "/biosample-cell-cultures/dc65e8ea-a612-4535-b402-499a13d6d785/", "@type": ["BiosampleCellCulture", "Item"], "uuid": "dc65e8ea-a612-4535-b402-499a13d6d785", "in_vitro_differentiated": "No", "status": "released", "display_title": "BiosampleCellCulture from 2019-06-20", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "tissue_organ_info": {"tissue_source": "skin fibroblast", "organ_system": ["integumental system", "ectoderm", "skin"]}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "experiment_type": {"status": "released", "assay_subclass_short": "DNA binding", "title": "CUT&RUN", "uuid": "64166b28-444f-46d6-bf98-f419eb72ccac", "assay_subclassification": "DNA Binding", "experiment_category": "Sequencing", "display_title": "CUT&RUN", "@type": ["ExperimentType", "Item"], "assay_classification": "Linear DNA Enrichment", "other_tags": ["1D"], "@id": "/experiment-types/cut-n-run/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "processed_files": [], "experiment_categorizer": {"field": "Target", "combined": "Target: H2A.Z protein", "value": "H2A.Z protein"}, "external_references": [], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "last_modified": {"date_modified": "2021-12-04T00:25:59.099409+00:00"}}, {"uuid": "8cb2968d-495e-4eff-be32-7ef81224af52", "@id": "/experiments-seq/4DNEXBDRKWDJ/", "display_title": "CUT&RUN against H2A.Z protein on HFFc6 (Tier 1) - 4DNEXBDRKWDJ", "accession": "4DNEXBDRKWDJ", "status": "released", "files": [{"display_title": "4DNFIV9FNAUF.fastq.gz", "upload_key": "2ec18008-dc3b-4345-9b66-befed67b879f/4DNFIV9FNAUF.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/2ec18008-dc3b-4345-9b66-befed67b879f/4DNFIV9FNAUF.fastq.gz", "paired_end": "1", "md5sum": "2aef23baf5771c9c8426c3a747e2d803", "href": "/files-fastq/4DNFIV9FNAUF/@@download/4DNFIV9FNAUF.fastq.gz", "file_size": 110661758, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIV9FNAUF", "file_classification": "raw file", "@id": "/files-fastq/4DNFIV9FNAUF/", "status": "released", "uuid": "2ec18008-dc3b-4345-9b66-befed67b879f", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIFBGABWZ", "uuid": "fcc44c51-c994-4c8d-8355-84a853732934", "display_title": "4DNFIFBGABWZ.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFIFBGABWZ/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/35a27ec7-8d83-421e-9340-206fda68ab3a/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIV9FNAUF/fastqc_report.html", "uuid": "35a27ec7-8d83-421e-9340-206fda68ab3a", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 2, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIFBGABWZ.fastq.gz", "upload_key": "fcc44c51-c994-4c8d-8355-84a853732934/4DNFIFBGABWZ.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/fcc44c51-c994-4c8d-8355-84a853732934/4DNFIFBGABWZ.fastq.gz", "paired_end": "2", "md5sum": "0a7b9bb5b1c585ce0bcbcda3221a5469", "href": "/files-fastq/4DNFIFBGABWZ/@@download/4DNFIFBGABWZ.fastq.gz", "file_size": 112646760, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIFBGABWZ", "file_classification": "raw file", "@id": "/files-fastq/4DNFIFBGABWZ/", "status": "released", "uuid": "fcc44c51-c994-4c8d-8355-84a853732934", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIV9FNAUF", "uuid": "2ec18008-dc3b-4345-9b66-befed67b879f", "display_title": "4DNFIV9FNAUF.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFIV9FNAUF/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/103d789e-0f4a-4958-8e08-71e9acce853e/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIFBGABWZ/fastqc_report.html", "uuid": "103d789e-0f4a-4958-8e08-71e9acce853e", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 2, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFI1BBR5NH.fastq.gz", "upload_key": "5d78a926-f544-41ac-b524-d154f9b5edd8/4DNFI1BBR5NH.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/5d78a926-f544-41ac-b524-d154f9b5edd8/4DNFI1BBR5NH.fastq.gz", "paired_end": "1", "md5sum": "24e3aa04cc958d22b2d9be6e069af05f", "href": "/files-fastq/4DNFI1BBR5NH/@@download/4DNFI1BBR5NH.fastq.gz", "file_size": 10068740, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFI1BBR5NH", "file_classification": "raw file", "@id": "/files-fastq/4DNFI1BBR5NH/", "status": "released", "uuid": "5d78a926-f544-41ac-b524-d154f9b5edd8", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIKSGNRVM", "uuid": "530cfa70-771c-49b5-875f-70d182200769", "display_title": "4DNFIKSGNRVM.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFIKSGNRVM/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/885d3d47-1862-4637-9498-27a9ba28c9ca/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI1BBR5NH/fastqc_report.html", "uuid": "885d3d47-1862-4637-9498-27a9ba28c9ca", "Total Sequences": 358331, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 2, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIKSGNRVM.fastq.gz", "upload_key": "530cfa70-771c-49b5-875f-70d182200769/4DNFIKSGNRVM.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/530cfa70-771c-49b5-875f-70d182200769/4DNFIKSGNRVM.fastq.gz", "paired_end": "2", "md5sum": "242a0b15d491333404d296a4f042779d", "href": "/files-fastq/4DNFIKSGNRVM/@@download/4DNFIKSGNRVM.fastq.gz", "file_size": 10200565, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIKSGNRVM", "file_classification": "raw file", "@id": "/files-fastq/4DNFIKSGNRVM/", "status": "released", "uuid": "530cfa70-771c-49b5-875f-70d182200769", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFI1BBR5NH", "uuid": "5d78a926-f544-41ac-b524-d154f9b5edd8", "display_title": "4DNFI1BBR5NH.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFI1BBR5NH/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/004b8ed6-a755-45a1-984a-f1589d978447/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIKSGNRVM/fastqc_report.html", "uuid": "004b8ed6-a755-45a1-984a-f1589d978447", "Total Sequences": 358331, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 2, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFI9W7IBWD.fastq.gz", "upload_key": "34ae699f-91de-442b-831c-0cd68b623619/4DNFI9W7IBWD.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/34ae699f-91de-442b-831c-0cd68b623619/4DNFI9W7IBWD.fastq.gz", "paired_end": "1", "md5sum": "57349e52d713011d499d7bb1d911f35b", "href": "/files-fastq/4DNFI9W7IBWD/@@download/4DNFI9W7IBWD.fastq.gz", "file_size": 110418367, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFI9W7IBWD", "file_classification": "raw file", "@id": "/files-fastq/4DNFI9W7IBWD/", "status": "released", "uuid": "34ae699f-91de-442b-831c-0cd68b623619", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIBKR1WUG", "uuid": "b5a0030d-57b9-4f58-8535-b29aac149ee5", "display_title": "4DNFIBKR1WUG.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFIBKR1WUG/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/1cc42bcd-8410-4ead-8adf-55045c8325f5/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI9W7IBWD/fastqc_report.html", "uuid": "1cc42bcd-8410-4ead-8adf-55045c8325f5", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 2, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIBKR1WUG.fastq.gz", "upload_key": "b5a0030d-57b9-4f58-8535-b29aac149ee5/4DNFIBKR1WUG.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/b5a0030d-57b9-4f58-8535-b29aac149ee5/4DNFIBKR1WUG.fastq.gz", "paired_end": "2", "md5sum": "a3fa914c6b761959e9acde21a02fd0a9", "href": "/files-fastq/4DNFIBKR1WUG/@@download/4DNFIBKR1WUG.fastq.gz", "file_size": 112404623, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIBKR1WUG", "file_classification": "raw file", "@id": "/files-fastq/4DNFIBKR1WUG/", "status": "released", "uuid": "b5a0030d-57b9-4f58-8535-b29aac149ee5", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFI9W7IBWD", "uuid": "34ae699f-91de-442b-831c-0cd68b623619", "display_title": "4DNFI9W7IBWD.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFI9W7IBWD/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/e4e4f23e-49fa-42c4-84ca-ef6d7290d2d4/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIBKR1WUG/fastqc_report.html", "uuid": "e4e4f23e-49fa-42c4-84ca-ef6d7290d2d4", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 2, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIIJRVOVN.fastq.gz", "upload_key": "eb79fe91-cc11-4919-a941-509c2dc0a3af/4DNFIIJRVOVN.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/eb79fe91-cc11-4919-a941-509c2dc0a3af/4DNFIIJRVOVN.fastq.gz", "paired_end": "1", "md5sum": "5358a2a5b5d1d0695a6a87dfb2595ee6", "href": "/files-fastq/4DNFIIJRVOVN/@@download/4DNFIIJRVOVN.fastq.gz", "file_size": 7694403, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIIJRVOVN", "file_classification": "raw file", "@id": "/files-fastq/4DNFIIJRVOVN/", "status": "released", "uuid": "eb79fe91-cc11-4919-a941-509c2dc0a3af", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIUD7EDE8", "uuid": "61cb8f08-91a4-48e9-8daf-226df1e277a1", "display_title": "4DNFIUD7EDE8.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFIUD7EDE8/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/f7c0def6-3537-4c98-91f6-c67169fd44c3/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIIJRVOVN/fastqc_report.html", "uuid": "f7c0def6-3537-4c98-91f6-c67169fd44c3", "Total Sequences": 274236, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 2, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIUD7EDE8.fastq.gz", "upload_key": "61cb8f08-91a4-48e9-8daf-226df1e277a1/4DNFIUD7EDE8.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/61cb8f08-91a4-48e9-8daf-226df1e277a1/4DNFIUD7EDE8.fastq.gz", "paired_end": "2", "md5sum": "96faaaa76513eec66dd910fa41260e80", "href": "/files-fastq/4DNFIUD7EDE8/@@download/4DNFIUD7EDE8.fastq.gz", "file_size": 7773637, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIUD7EDE8", "file_classification": "raw file", "@id": "/files-fastq/4DNFIUD7EDE8/", "status": "released", "uuid": "61cb8f08-91a4-48e9-8daf-226df1e277a1", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIIJRVOVN", "uuid": "eb79fe91-cc11-4919-a941-509c2dc0a3af", "display_title": "4DNFIIJRVOVN.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFIIJRVOVN/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/66f53a14-3b1c-4965-a8c3-bb75570da3d8/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIUD7EDE8/fastqc_report.html", "uuid": "66f53a14-3b1c-4965-a8c3-bb75570da3d8", "Total Sequences": 274236, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 2, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}], "@type": ["ExperimentSeq", "Experiment", "Item"], "biosample": {"uuid": "0d412df4-f842-4bf0-8dc4-f3987f602694", "status": "released", "biosample_category": ["HFF (c6 or hTERT)"], "accession": "4DNBSYYWU79I", "modifications_summary": "None", "@type": ["Biosample", "Item"], "biosample_type": "immortalized cells", "display_title": "4DNBSYYWU79I", "@id": "/biosamples/4DNBSYYWU79I/", "biosource_summary": "HFFc6 (Tier 1)", "treatments_summary": "None", "badges": [{"messages": ["Biosample missing doubling_number"], "badge": {"title": "Biosample Metadata Incomplete", "badge_classification": "Warning", "@id": "/badges/biosample-metadata-incomplete/", "display_title": "Biosample Metadata Incomplete", "badge_icon": "/static/img/badges/biosample-icon.svg", "description": "Biosample is missing metadata information required as part of the standards implemented by the 4DN Samples working group.", "warning": "Biosample Metadata Incomplete", "@type": ["Badge", "Item"], "status": "released", "uuid": "2b2cc7ff-b7a8-4138-9a6c-22884fc71690", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "biosource": [{"cell_line_tier": "Tier 1", "@type": ["Biosource", "Item"], "display_title": "HFFc6 (Tier 1) - 4DNSRC6ZVYVP", "biosource_type": "immortalized cell line", "accession": "4DNSRC6ZVYVP", "@id": "/biosources/4DNSRC6ZVYVP/", "status": "released", "uuid": "10aa2d32-9fd4-46ce-a585-827d8c7810c3", "tissue": {"term_name": "skin fibroblast", "uuid": "1a658f38-8dee-4ed2-92ca-c694b5cef902", "@type": ["OntologyTerm", "Item"], "preferred_name": "skin fibroblast", "status": "released", "display_title": "skin fibroblast", "term_id": "CL:0002620", "@id": "/ontology-terms/CL:0002620/", "slim_terms": [{"uuid": "111134bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0002416/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "integumental system", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "45d2b02e-130b-40db-8bf2-2288c6c57dcf", "@id": "/ontology-terms/CL:0000000/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "111119bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0000924/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "ectoderm", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "111188bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0002097/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "skin", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "72e16a19-eef3-46ca-a1b8-20e646e69675", "@id": "/ontology-terms/GO:0005623/", "status": "current", "@type": ["OntologyTerm", "Item"], "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "organism": {"scientific_name": "Homo sapiens", "@id": "/organisms/9606/", "display_title": "H. sapiens", "uuid": "7745b647-ff15-4ff3-9ced-b897d4e2983c", "@type": ["Organism", "Item"], "status": "released", "name": "human", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "cell_line": {"term_id": "EFO:0009318", "display_title": "HFFc6", "@id": "/ontology-terms/EFO:0009318/", "term_name": "HFFc6", "uuid": "426ef4ff-c1f7-486e-bfcf-612ebb52c8b0", "synonyms": ["HFF-hTERT clone 6"], "status": "released", "@type": ["OntologyTerm", "Item"], "preferred_name": "HFFc6", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "slim_terms": [{"status": "current", "@id": "/ontology-terms/GO:0005623/", "@type": ["OntologyTerm", "Item"], "uuid": "72e16a19-eef3-46ca-a1b8-20e646e69675", "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"status": "released", "@id": "/ontology-terms/CL:0000000/", "@type": ["OntologyTerm", "Item"], "uuid": "45d2b02e-130b-40db-8bf2-2288c6c57dcf", "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}]}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "cell_culture_details": [{"@id": "/biosample-cell-cultures/646a4879-46bf-4b0f-9a1e-4f0accbba8f4/", "@type": ["BiosampleCellCulture", "Item"], "uuid": "646a4879-46bf-4b0f-9a1e-4f0accbba8f4", "in_vitro_differentiated": "No", "status": "released", "display_title": "BiosampleCellCulture from 2019-06-20", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "tissue_organ_info": {"tissue_source": "skin fibroblast", "organ_system": ["integumental system", "ectoderm", "skin"]}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "experiment_type": {"status": "released", "assay_subclass_short": "DNA binding", "title": "CUT&RUN", "uuid": "64166b28-444f-46d6-bf98-f419eb72ccac", "assay_subclassification": "DNA Binding", "experiment_category": "Sequencing", "display_title": "CUT&RUN", "@type": ["ExperimentType", "Item"], "assay_classification": "Linear DNA Enrichment", "other_tags": ["1D"], "@id": "/experiment-types/cut-n-run/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "processed_files": [], "experiment_categorizer": {"field": "Target", "combined": "Target: H2A.Z protein", "value": "H2A.Z protein"}, "external_references": [], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "last_modified": {"date_modified": "2021-12-04T00:26:09.344036+00:00"}}, {"uuid": "881857e1-6b7b-4d21-a0c5-badf7028df8a", "@id": "/experiments-seq/4DNEXEJSRPHN/", "display_title": "CUT&RUN against H2A.Z protein on HFFc6 (Tier 1) - 4DNEXEJSRPHN", "accession": "4DNEXEJSRPHN", "status": "released", "files": [{"display_title": "4DNFIEDWSXWM.fastq.gz", "upload_key": "19c07a9b-da1f-4213-a13f-1e552bd1f173/4DNFIEDWSXWM.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/19c07a9b-da1f-4213-a13f-1e552bd1f173/4DNFIEDWSXWM.fastq.gz", "paired_end": "1", "md5sum": "f49ef616159cfc2fdfb4d532fa72d52f", "href": "/files-fastq/4DNFIEDWSXWM/@@download/4DNFIEDWSXWM.fastq.gz", "file_size": 109431172, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIEDWSXWM", "file_classification": "raw file", "@id": "/files-fastq/4DNFIEDWSXWM/", "status": "released", "uuid": "19c07a9b-da1f-4213-a13f-1e552bd1f173", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIZDJDPFI", "uuid": "73387b81-60c8-4957-b641-57f9673b3d63", "display_title": "4DNFIZDJDPFI.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFIZDJDPFI/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/0349646c-5a78-433c-9217-79c75b5fc034/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIEDWSXWM/fastqc_report.html", "uuid": "0349646c-5a78-433c-9217-79c75b5fc034", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 3, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIZDJDPFI.fastq.gz", "upload_key": "73387b81-60c8-4957-b641-57f9673b3d63/4DNFIZDJDPFI.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/73387b81-60c8-4957-b641-57f9673b3d63/4DNFIZDJDPFI.fastq.gz", "paired_end": "2", "md5sum": "9c0893cfc3ddb6d7ca5544eaa85a2ada", "href": "/files-fastq/4DNFIZDJDPFI/@@download/4DNFIZDJDPFI.fastq.gz", "file_size": 110952614, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIZDJDPFI", "file_classification": "raw file", "@id": "/files-fastq/4DNFIZDJDPFI/", "status": "released", "uuid": "73387b81-60c8-4957-b641-57f9673b3d63", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIEDWSXWM", "uuid": "19c07a9b-da1f-4213-a13f-1e552bd1f173", "display_title": "4DNFIEDWSXWM.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFIEDWSXWM/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/7a52753e-43c6-49dc-b6d6-31dc57291a6e/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIZDJDPFI/fastqc_report.html", "uuid": "7a52753e-43c6-49dc-b6d6-31dc57291a6e", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 3, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIQOWRMNS.fastq.gz", "upload_key": "53e354bd-2cdd-4fbd-aa16-629a222e77dc/4DNFIQOWRMNS.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/53e354bd-2cdd-4fbd-aa16-629a222e77dc/4DNFIQOWRMNS.fastq.gz", "paired_end": "1", "md5sum": "d52cba296dae8607972afe06935279c2", "href": "/files-fastq/4DNFIQOWRMNS/@@download/4DNFIQOWRMNS.fastq.gz", "file_size": 16769433, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIQOWRMNS", "file_classification": "raw file", "@id": "/files-fastq/4DNFIQOWRMNS/", "status": "released", "uuid": "53e354bd-2cdd-4fbd-aa16-629a222e77dc", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFI5WS14LQ", "uuid": "d8582906-3368-4326-8988-3c18015c8ae0", "display_title": "4DNFI5WS14LQ.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFI5WS14LQ/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/18795b28-3ea4-4ecc-894f-abf7aa4158ea/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIQOWRMNS/fastqc_report.html", "uuid": "18795b28-3ea4-4ecc-894f-abf7aa4158ea", "Total Sequences": 608852, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 3, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFI5WS14LQ.fastq.gz", "upload_key": "d8582906-3368-4326-8988-3c18015c8ae0/4DNFI5WS14LQ.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/d8582906-3368-4326-8988-3c18015c8ae0/4DNFI5WS14LQ.fastq.gz", "paired_end": "2", "md5sum": "a900f0ed7dad07e38edc09f378331866", "href": "/files-fastq/4DNFI5WS14LQ/@@download/4DNFI5WS14LQ.fastq.gz", "file_size": 16982670, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFI5WS14LQ", "file_classification": "raw file", "@id": "/files-fastq/4DNFI5WS14LQ/", "status": "released", "uuid": "d8582906-3368-4326-8988-3c18015c8ae0", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIQOWRMNS", "uuid": "53e354bd-2cdd-4fbd-aa16-629a222e77dc", "display_title": "4DNFIQOWRMNS.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFIQOWRMNS/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/ac13f472-7bb7-4da2-af5d-d5359ffc3e33/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI5WS14LQ/fastqc_report.html", "uuid": "ac13f472-7bb7-4da2-af5d-d5359ffc3e33", "Total Sequences": 608852, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 3, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIVN3HZ7D.fastq.gz", "upload_key": "eadc25f2-b55c-4328-be4a-7db43eec4683/4DNFIVN3HZ7D.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/eadc25f2-b55c-4328-be4a-7db43eec4683/4DNFIVN3HZ7D.fastq.gz", "paired_end": "1", "md5sum": "781f4f940dbc1790c2c2a56d40f210fb", "href": "/files-fastq/4DNFIVN3HZ7D/@@download/4DNFIVN3HZ7D.fastq.gz", "file_size": 109197748, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIVN3HZ7D", "file_classification": "raw file", "@id": "/files-fastq/4DNFIVN3HZ7D/", "status": "released", "uuid": "eadc25f2-b55c-4328-be4a-7db43eec4683", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIGLX7RD3", "uuid": "995b577b-0a81-4a21-b578-277e637a93bd", "display_title": "4DNFIGLX7RD3.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFIGLX7RD3/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/da3a6c53-4562-460f-b90f-e2af0d1ec363/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIVN3HZ7D/fastqc_report.html", "uuid": "da3a6c53-4562-460f-b90f-e2af0d1ec363", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 3, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIGLX7RD3.fastq.gz", "upload_key": "995b577b-0a81-4a21-b578-277e637a93bd/4DNFIGLX7RD3.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/995b577b-0a81-4a21-b578-277e637a93bd/4DNFIGLX7RD3.fastq.gz", "paired_end": "2", "md5sum": "e504f50640b0be244182629e7d8984ea", "href": "/files-fastq/4DNFIGLX7RD3/@@download/4DNFIGLX7RD3.fastq.gz", "file_size": 110819207, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIGLX7RD3", "file_classification": "raw file", "@id": "/files-fastq/4DNFIGLX7RD3/", "status": "released", "uuid": "995b577b-0a81-4a21-b578-277e637a93bd", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIVN3HZ7D", "uuid": "eadc25f2-b55c-4328-be4a-7db43eec4683", "display_title": "4DNFIVN3HZ7D.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFIVN3HZ7D/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/14750cdb-5950-458f-9db0-87deaf3894f4/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIGLX7RD3/fastqc_report.html", "uuid": "14750cdb-5950-458f-9db0-87deaf3894f4", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 3, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFINGT54VQ.fastq.gz", "upload_key": "6317479e-1f02-4523-b9d8-b38ca69b4789/4DNFINGT54VQ.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/6317479e-1f02-4523-b9d8-b38ca69b4789/4DNFINGT54VQ.fastq.gz", "paired_end": "1", "md5sum": "d486541fc74d509f0043cca0a958f3d2", "href": "/files-fastq/4DNFINGT54VQ/@@download/4DNFINGT54VQ.fastq.gz", "file_size": 15158631, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFINGT54VQ", "file_classification": "raw file", "@id": "/files-fastq/4DNFINGT54VQ/", "status": "released", "uuid": "6317479e-1f02-4523-b9d8-b38ca69b4789", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFI6QUSBAU", "uuid": "8862a77b-f5ba-48d2-b9b6-e5f89797f7bd", "display_title": "4DNFI6QUSBAU.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFI6QUSBAU/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/b91a8152-f738-42c7-9db6-c4ebd075b157/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFINGT54VQ/fastqc_report.html", "uuid": "b91a8152-f738-42c7-9db6-c4ebd075b157", "Total Sequences": 549978, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 3, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFI6QUSBAU.fastq.gz", "upload_key": "8862a77b-f5ba-48d2-b9b6-e5f89797f7bd/4DNFI6QUSBAU.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/8862a77b-f5ba-48d2-b9b6-e5f89797f7bd/4DNFI6QUSBAU.fastq.gz", "paired_end": "2", "md5sum": "1b511ede404c57ceddaeee2e66d60c4f", "href": "/files-fastq/4DNFI6QUSBAU/@@download/4DNFI6QUSBAU.fastq.gz", "file_size": 15360566, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFI6QUSBAU", "file_classification": "raw file", "@id": "/files-fastq/4DNFI6QUSBAU/", "status": "released", "uuid": "8862a77b-f5ba-48d2-b9b6-e5f89797f7bd", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFINGT54VQ", "uuid": "6317479e-1f02-4523-b9d8-b38ca69b4789", "display_title": "4DNFINGT54VQ.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFINGT54VQ/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/2e5cedec-63a5-4c7a-aa41-948f0a0442c1/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI6QUSBAU/fastqc_report.html", "uuid": "2e5cedec-63a5-4c7a-aa41-948f0a0442c1", "Total Sequences": 549978, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 3, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}], "@type": ["ExperimentSeq", "Experiment", "Item"], "biosample": {"uuid": "310ad0a2-0c39-4aca-bebf-11ae7898c64e", "status": "released", "biosample_category": ["HFF (c6 or hTERT)"], "accession": "4DNBSTY9L2Q4", "modifications_summary": "None", "@type": ["Biosample", "Item"], "biosample_type": "immortalized cells", "display_title": "4DNBSTY9L2Q4", "@id": "/biosamples/4DNBSTY9L2Q4/", "biosource_summary": "HFFc6 (Tier 1)", "treatments_summary": "None", "badges": [{"messages": ["Biosample missing doubling_number"], "badge": {"title": "Biosample Metadata Incomplete", "badge_classification": "Warning", "@id": "/badges/biosample-metadata-incomplete/", "display_title": "Biosample Metadata Incomplete", "badge_icon": "/static/img/badges/biosample-icon.svg", "description": "Biosample is missing metadata information required as part of the standards implemented by the 4DN Samples working group.", "warning": "Biosample Metadata Incomplete", "@type": ["Badge", "Item"], "status": "released", "uuid": "2b2cc7ff-b7a8-4138-9a6c-22884fc71690", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "biosource": [{"cell_line_tier": "Tier 1", "@type": ["Biosource", "Item"], "display_title": "HFFc6 (Tier 1) - 4DNSRC6ZVYVP", "biosource_type": "immortalized cell line", "accession": "4DNSRC6ZVYVP", "@id": "/biosources/4DNSRC6ZVYVP/", "status": "released", "uuid": "10aa2d32-9fd4-46ce-a585-827d8c7810c3", "tissue": {"term_name": "skin fibroblast", "uuid": "1a658f38-8dee-4ed2-92ca-c694b5cef902", "@type": ["OntologyTerm", "Item"], "preferred_name": "skin fibroblast", "status": "released", "display_title": "skin fibroblast", "term_id": "CL:0002620", "@id": "/ontology-terms/CL:0002620/", "slim_terms": [{"uuid": "111134bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0002416/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "integumental system", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "45d2b02e-130b-40db-8bf2-2288c6c57dcf", "@id": "/ontology-terms/CL:0000000/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "111119bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0000924/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "ectoderm", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "111188bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0002097/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "skin", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "72e16a19-eef3-46ca-a1b8-20e646e69675", "@id": "/ontology-terms/GO:0005623/", "status": "current", "@type": ["OntologyTerm", "Item"], "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "organism": {"scientific_name": "Homo sapiens", "@id": "/organisms/9606/", "display_title": "H. sapiens", "uuid": "7745b647-ff15-4ff3-9ced-b897d4e2983c", "@type": ["Organism", "Item"], "status": "released", "name": "human", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "cell_line": {"term_id": "EFO:0009318", "display_title": "HFFc6", "@id": "/ontology-terms/EFO:0009318/", "term_name": "HFFc6", "uuid": "426ef4ff-c1f7-486e-bfcf-612ebb52c8b0", "synonyms": ["HFF-hTERT clone 6"], "status": "released", "@type": ["OntologyTerm", "Item"], "preferred_name": "HFFc6", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "slim_terms": [{"status": "current", "@id": "/ontology-terms/GO:0005623/", "@type": ["OntologyTerm", "Item"], "uuid": "72e16a19-eef3-46ca-a1b8-20e646e69675", "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"status": "released", "@id": "/ontology-terms/CL:0000000/", "@type": ["OntologyTerm", "Item"], "uuid": "45d2b02e-130b-40db-8bf2-2288c6c57dcf", "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}]}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "cell_culture_details": [{"@id": "/biosample-cell-cultures/994bdabd-8779-46fa-9a50-4463a2bc3b96/", "@type": ["BiosampleCellCulture", "Item"], "uuid": "994bdabd-8779-46fa-9a50-4463a2bc3b96", "in_vitro_differentiated": "No", "status": "released", "display_title": "BiosampleCellCulture from 2019-06-20", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "tissue_organ_info": {"tissue_source": "skin fibroblast", "organ_system": ["integumental system", "ectoderm", "skin"]}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "experiment_type": {"status": "released", "assay_subclass_short": "DNA binding", "title": "CUT&RUN", "uuid": "64166b28-444f-46d6-bf98-f419eb72ccac", "assay_subclassification": "DNA Binding", "experiment_category": "Sequencing", "display_title": "CUT&RUN", "@type": ["ExperimentType", "Item"], "assay_classification": "Linear DNA Enrichment", "other_tags": ["1D"], "@id": "/experiment-types/cut-n-run/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "processed_files": [], "experiment_categorizer": {"field": "Target", "combined": "Target: H2A.Z protein", "value": "H2A.Z protein"}, "external_references": [], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "last_modified": {"date_modified": "2021-12-04T00:26:17.252003+00:00"}}, {"uuid": "1d278140-bcd2-4ef9-8abd-7273245fe0a8", "@id": "/experiments-seq/4DNEXU4GVYC8/", "display_title": "CUT&RUN against H2A.Z protein on HFFc6 (Tier 1) - 4DNEXU4GVYC8", "accession": "4DNEXU4GVYC8", "status": "released", "files": [{"display_title": "4DNFI3CYJ8TD.fastq.gz", "upload_key": "d378f29c-3a61-473f-ad18-21f3a43e3813/4DNFI3CYJ8TD.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/d378f29c-3a61-473f-ad18-21f3a43e3813/4DNFI3CYJ8TD.fastq.gz", "paired_end": "1", "md5sum": "a3832abd5ddae46bf839dd2a2ed64382", "href": "/files-fastq/4DNFI3CYJ8TD/@@download/4DNFI3CYJ8TD.fastq.gz", "file_size": 109560930, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFI3CYJ8TD", "file_classification": "raw file", "@id": "/files-fastq/4DNFI3CYJ8TD/", "status": "released", "uuid": "d378f29c-3a61-473f-ad18-21f3a43e3813", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFINBFO6GV", "uuid": "f53bfa43-3fcc-4905-bcda-d0e05dce9cb8", "display_title": "4DNFINBFO6GV.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFINBFO6GV/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/4c2117cb-0002-447d-b2c0-381ee2e36a60/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI3CYJ8TD/fastqc_report.html", "uuid": "4c2117cb-0002-447d-b2c0-381ee2e36a60", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 4, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFINBFO6GV.fastq.gz", "upload_key": "f53bfa43-3fcc-4905-bcda-d0e05dce9cb8/4DNFINBFO6GV.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/f53bfa43-3fcc-4905-bcda-d0e05dce9cb8/4DNFINBFO6GV.fastq.gz", "paired_end": "2", "md5sum": "953784dc5b9508d7c7d57bd8aaff61d7", "href": "/files-fastq/4DNFINBFO6GV/@@download/4DNFINBFO6GV.fastq.gz", "file_size": 111504231, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFINBFO6GV", "file_classification": "raw file", "@id": "/files-fastq/4DNFINBFO6GV/", "status": "released", "uuid": "f53bfa43-3fcc-4905-bcda-d0e05dce9cb8", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFI3CYJ8TD", "uuid": "d378f29c-3a61-473f-ad18-21f3a43e3813", "display_title": "4DNFI3CYJ8TD.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFI3CYJ8TD/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/2d4b1216-ec31-420b-b4da-6c92204d1cb7/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFINBFO6GV/fastqc_report.html", "uuid": "2d4b1216-ec31-420b-b4da-6c92204d1cb7", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 4, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIWDHRPUZ.fastq.gz", "upload_key": "c77b04ef-4619-420e-91b4-ef403c9ab82b/4DNFIWDHRPUZ.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/c77b04ef-4619-420e-91b4-ef403c9ab82b/4DNFIWDHRPUZ.fastq.gz", "paired_end": "1", "md5sum": "fe7cd7013d91e54cdfe8d70bd37860eb", "href": "/files-fastq/4DNFIWDHRPUZ/@@download/4DNFIWDHRPUZ.fastq.gz", "file_size": 47495449, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIWDHRPUZ", "file_classification": "raw file", "@id": "/files-fastq/4DNFIWDHRPUZ/", "status": "released", "uuid": "c77b04ef-4619-420e-91b4-ef403c9ab82b", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFI6CAHYP9", "uuid": "bb2853b5-4f20-4c80-a875-df464486ea68", "display_title": "4DNFI6CAHYP9.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFI6CAHYP9/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/07b05a48-c267-40a3-8902-23e08bc63658/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIWDHRPUZ/fastqc_report.html", "uuid": "07b05a48-c267-40a3-8902-23e08bc63658", "Total Sequences": 1733904, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 4, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFI6CAHYP9.fastq.gz", "upload_key": "bb2853b5-4f20-4c80-a875-df464486ea68/4DNFI6CAHYP9.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/bb2853b5-4f20-4c80-a875-df464486ea68/4DNFI6CAHYP9.fastq.gz", "paired_end": "2", "md5sum": "cb9b1bd030b8ad19ae1fc3e9864bb8bc", "href": "/files-fastq/4DNFI6CAHYP9/@@download/4DNFI6CAHYP9.fastq.gz", "file_size": 48263695, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFI6CAHYP9", "file_classification": "raw file", "@id": "/files-fastq/4DNFI6CAHYP9/", "status": "released", "uuid": "bb2853b5-4f20-4c80-a875-df464486ea68", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIWDHRPUZ", "uuid": "c77b04ef-4619-420e-91b4-ef403c9ab82b", "display_title": "4DNFIWDHRPUZ.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFIWDHRPUZ/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/0086beb7-4210-4c26-835b-a3c1a060de9f/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI6CAHYP9/fastqc_report.html", "uuid": "0086beb7-4210-4c26-835b-a3c1a060de9f", "Total Sequences": 1733904, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 4, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIX93Z99Y.fastq.gz", "upload_key": "6685c6bb-3a25-4384-8ca0-e697ac93e060/4DNFIX93Z99Y.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/6685c6bb-3a25-4384-8ca0-e697ac93e060/4DNFIX93Z99Y.fastq.gz", "paired_end": "1", "md5sum": "288f1c183471c65eccb7ef3587befece", "href": "/files-fastq/4DNFIX93Z99Y/@@download/4DNFIX93Z99Y.fastq.gz", "file_size": 109368769, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIX93Z99Y", "file_classification": "raw file", "@id": "/files-fastq/4DNFIX93Z99Y/", "status": "released", "uuid": "6685c6bb-3a25-4384-8ca0-e697ac93e060", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIWZ27CB3", "uuid": "cfcf2a0e-0322-41b4-a8f1-03ba4057efbf", "display_title": "4DNFIWZ27CB3.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFIWZ27CB3/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/f439877a-2ccd-4054-9177-833f261d0115/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIX93Z99Y/fastqc_report.html", "uuid": "f439877a-2ccd-4054-9177-833f261d0115", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 4, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIWZ27CB3.fastq.gz", "upload_key": "cfcf2a0e-0322-41b4-a8f1-03ba4057efbf/4DNFIWZ27CB3.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/cfcf2a0e-0322-41b4-a8f1-03ba4057efbf/4DNFIWZ27CB3.fastq.gz", "paired_end": "2", "md5sum": "aab452a678214051061414608d7e8222", "href": "/files-fastq/4DNFIWZ27CB3/@@download/4DNFIWZ27CB3.fastq.gz", "file_size": 111384749, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIWZ27CB3", "file_classification": "raw file", "@id": "/files-fastq/4DNFIWZ27CB3/", "status": "released", "uuid": "cfcf2a0e-0322-41b4-a8f1-03ba4057efbf", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIX93Z99Y", "uuid": "6685c6bb-3a25-4384-8ca0-e697ac93e060", "display_title": "4DNFIX93Z99Y.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFIX93Z99Y/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/8f95d3ed-f734-409c-a5e9-35e720a9fbc8/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIWZ27CB3/fastqc_report.html", "uuid": "8f95d3ed-f734-409c-a5e9-35e720a9fbc8", "Total Sequences": 4000000, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 4, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFIQ756NED.fastq.gz", "upload_key": "cbdee519-c34b-4ed2-b908-0ddb4b90bab0/4DNFIQ756NED.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/cbdee519-c34b-4ed2-b908-0ddb4b90bab0/4DNFIQ756NED.fastq.gz", "paired_end": "1", "md5sum": "8e06c1eb10512b099c94e35155fd286c", "href": "/files-fastq/4DNFIQ756NED/@@download/4DNFIQ756NED.fastq.gz", "file_size": 45467056, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFIQ756NED", "file_classification": "raw file", "@id": "/files-fastq/4DNFIQ756NED/", "status": "released", "uuid": "cbdee519-c34b-4ed2-b908-0ddb4b90bab0", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFI6BOZ8OH", "uuid": "fc0d6669-bffd-41d2-845f-f4e733967739", "display_title": "4DNFI6BOZ8OH.fastq.gz", "status": "released", "paired_end": "2", "@id": "/files-fastq/4DNFI6BOZ8OH/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/80adfd62-7450-41d0-889b-71a6a83e32ed/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIQ756NED/fastqc_report.html", "uuid": "80adfd62-7450-41d0-889b-71a6a83e32ed", "Total Sequences": 1661343, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 4, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}, {"display_title": "4DNFI6BOZ8OH.fastq.gz", "upload_key": "fc0d6669-bffd-41d2-845f-f4e733967739/4DNFI6BOZ8OH.fastq.gz", "@type": ["FileFastq", "File", "Item"], "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/fc0d6669-bffd-41d2-845f-f4e733967739/4DNFI6BOZ8OH.fastq.gz", "paired_end": "2", "md5sum": "24f78e757a415b5dbf9a29b2195a8c2d", "href": "/files-fastq/4DNFI6BOZ8OH/@@download/4DNFI6BOZ8OH.fastq.gz", "file_size": 46259035, "file_type": "reads", "file_type_detailed": "reads (fastq)", "accession": "4DNFI6BOZ8OH", "file_classification": "raw file", "@id": "/files-fastq/4DNFI6BOZ8OH/", "status": "released", "uuid": "fc0d6669-bffd-41d2-845f-f4e733967739", "related_files": [{"relationship_type": "paired with", "file": {"file_type": "reads", "@type": ["FileFastq", "File", "Item"], "file_type_detailed": "reads (fastq)", "accession": "4DNFIQ756NED", "uuid": "cbdee519-c34b-4ed2-b908-0ddb4b90bab0", "display_title": "4DNFIQ756NED.fastq.gz", "status": "released", "paired_end": "1", "@id": "/files-fastq/4DNFIQ756NED/", "file_format": {"uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "@id": "/file-formats/fastq/", "file_format": "fastq", "display_title": "fastq", "@type": ["FileFormat", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "quality_metric": {"overall_quality_status": "PASS", "@id": "/quality-metrics-fastqc/9a074c82-4653-450a-b49c-fe3bf567590c/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFI6BOZ8OH/fastqc_report.html", "uuid": "9a074c82-4653-450a-b49c-fe3bf567590c", "Total Sequences": 1661343, "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Sequence length": "25", "display_title": "QualityMetricFastqc from 2019-06-21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "lab": {"@id": "/labs/steve-henikoff-lab/", "@type": ["Lab", "Item"], "uuid": "3a41e042-a9f3-4205-a28a-4c20ba2edda2", "status": "current", "display_title": "Steve Henikoff, FREDHUTCH", "name": "steve-henikoff-lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.3a41e042-a9f3-4205-a28a-4c20ba2edda2"]}}, "file_format": {"file_format": "fastq", "@type": ["FileFormat", "Item"], "@id": "/file-formats/fastq/", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "status": "released", "display_title": "fastq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "external_references": [], "track_and_facet_info": {"experimental_lab": "Steve Henikoff, FREDHUTCH", "experiment_type": "CUT&RUN", "experiment_bucket": "raw file", "assay_info": "H2A.Z protein", "dataset": "H2A.Z - HFFc6", "condition": "Active Motif 39113", "replicate_info": "Biorep 4, Techrep 1", "biosource_name": "HFFc6 (Tier 1)", "lab_name": "Steve Henikoff, FREDHUTCH"}}], "@type": ["ExperimentSeq", "Experiment", "Item"], "biosample": {"uuid": "2e61eced-3901-4ed8-a714-1baaf5a29c0f", "status": "released", "biosample_category": ["HFF (c6 or hTERT)"], "accession": "4DNBSAZ76JBZ", "modifications_summary": "None", "@type": ["Biosample", "Item"], "biosample_type": "immortalized cells", "display_title": "4DNBSAZ76JBZ", "@id": "/biosamples/4DNBSAZ76JBZ/", "biosource_summary": "HFFc6 (Tier 1)", "treatments_summary": "None", "badges": [{"messages": ["Biosample missing doubling_number"], "badge": {"title": "Biosample Metadata Incomplete", "badge_classification": "Warning", "@id": "/badges/biosample-metadata-incomplete/", "display_title": "Biosample Metadata Incomplete", "badge_icon": "/static/img/badges/biosample-icon.svg", "description": "Biosample is missing metadata information required as part of the standards implemented by the 4DN Samples working group.", "warning": "Biosample Metadata Incomplete", "@type": ["Badge", "Item"], "status": "released", "uuid": "2b2cc7ff-b7a8-4138-9a6c-22884fc71690", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "biosource": [{"cell_line_tier": "Tier 1", "@type": ["Biosource", "Item"], "display_title": "HFFc6 (Tier 1) - 4DNSRC6ZVYVP", "biosource_type": "immortalized cell line", "accession": "4DNSRC6ZVYVP", "@id": "/biosources/4DNSRC6ZVYVP/", "status": "released", "uuid": "10aa2d32-9fd4-46ce-a585-827d8c7810c3", "tissue": {"term_name": "skin fibroblast", "uuid": "1a658f38-8dee-4ed2-92ca-c694b5cef902", "@type": ["OntologyTerm", "Item"], "preferred_name": "skin fibroblast", "status": "released", "display_title": "skin fibroblast", "term_id": "CL:0002620", "@id": "/ontology-terms/CL:0002620/", "slim_terms": [{"uuid": "111134bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0002416/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "integumental system", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "45d2b02e-130b-40db-8bf2-2288c6c57dcf", "@id": "/ontology-terms/CL:0000000/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "111119bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0000924/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "ectoderm", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "111188bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0002097/", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "skin", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "72e16a19-eef3-46ca-a1b8-20e646e69675", "@id": "/ontology-terms/GO:0005623/", "status": "current", "@type": ["OntologyTerm", "Item"], "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "organism": {"scientific_name": "Homo sapiens", "@id": "/organisms/9606/", "display_title": "H. sapiens", "uuid": "7745b647-ff15-4ff3-9ced-b897d4e2983c", "@type": ["Organism", "Item"], "status": "released", "name": "human", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "cell_line": {"term_id": "EFO:0009318", "display_title": "HFFc6", "@id": "/ontology-terms/EFO:0009318/", "term_name": "HFFc6", "uuid": "426ef4ff-c1f7-486e-bfcf-612ebb52c8b0", "synonyms": ["HFF-hTERT clone 6"], "status": "released", "@type": ["OntologyTerm", "Item"], "preferred_name": "HFFc6", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "slim_terms": [{"status": "current", "@id": "/ontology-terms/GO:0005623/", "@type": ["OntologyTerm", "Item"], "uuid": "72e16a19-eef3-46ca-a1b8-20e646e69675", "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"status": "released", "@id": "/ontology-terms/CL:0000000/", "@type": ["OntologyTerm", "Item"], "uuid": "45d2b02e-130b-40db-8bf2-2288c6c57dcf", "display_title": "cell", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}]}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "cell_culture_details": [{"@id": "/biosample-cell-cultures/a95fcabb-6568-4f11-a412-6e679a24908d/", "@type": ["BiosampleCellCulture", "Item"], "uuid": "a95fcabb-6568-4f11-a412-6e679a24908d", "in_vitro_differentiated": "No", "status": "released", "display_title": "BiosampleCellCulture from 2019-06-20", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "tissue_organ_info": {"tissue_source": "skin fibroblast", "organ_system": ["integumental system", "ectoderm", "skin"]}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "experiment_type": {"status": "released", "assay_subclass_short": "DNA binding", "title": "CUT&RUN", "uuid": "64166b28-444f-46d6-bf98-f419eb72ccac", "assay_subclassification": "DNA Binding", "experiment_category": "Sequencing", "display_title": "CUT&RUN", "@type": ["ExperimentType", "Item"], "assay_classification": "Linear DNA Enrichment", "other_tags": ["1D"], "@id": "/experiment-types/cut-n-run/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "processed_files": [], "experiment_categorizer": {"field": "Target", "combined": "Target: H2A.Z protein", "value": "H2A.Z protein"}, "external_references": [], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "last_modified": {"date_modified": "2021-12-04T00:26:28.520162+00:00"}}], "experimentset_type": "replicate", "completed_processes": [], "@id": "/experiment-set-replicates/4DNESIBPKCJK/", "@type": ["ExperimentSetReplicate", "ExperimentSet", "Item"], "uuid": "15cce566-da83-4c43-94df-4be65c182e3f", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "4DNESIBPKCJK", "external_references": [], "pubs_using": [], "publications_of_set": [], "number_of_experiments": 4, "@context": "/terms/", "aggregated-items": {"badges": [{"parent": "/biosamples/4DNBSW9W69YZ/", "embedded_path": "experiments_in_set.biosample.badges", "item": {"messages": ["Biosample missing doubling_number"], "badge": {"commendation": null, "warning": "Biosample Metadata Incomplete", "uuid": "2b2cc7ff-b7a8-4138-9a6c-22884fc71690", "@id": "/badges/biosample-metadata-incomplete/", "badge_icon": "/static/img/badges/biosample-icon.svg", "description": "Biosample is missing metadata information required as part of the standards implemented by the 4DN Samples working group."}}}, {"parent": "/biosamples/4DNBSYYWU79I/", "embedded_path": "experiments_in_set.biosample.badges", "item": {"messages": ["Biosample missing doubling_number"], "badge": {"commendation": null, "warning": "Biosample Metadata Incomplete", "uuid": "2b2cc7ff-b7a8-4138-9a6c-22884fc71690", "@id": "/badges/biosample-metadata-incomplete/", "badge_icon": "/static/img/badges/biosample-icon.svg", "description": "Biosample is missing metadata information required as part of the standards implemented by the 4DN Samples working group."}}}, {"parent": "/biosamples/4DNBSTY9L2Q4/", "embedded_path": "experiments_in_set.biosample.badges", "item": {"messages": ["Biosample missing doubling_number"], "badge": {"commendation": null, "warning": "Biosample Metadata Incomplete", "uuid": "2b2cc7ff-b7a8-4138-9a6c-22884fc71690", "@id": "/badges/biosample-metadata-incomplete/", "badge_icon": "/static/img/badges/biosample-icon.svg", "description": "Biosample is missing metadata information required as part of the standards implemented by the 4DN Samples working group."}}}, {"parent": "/biosamples/4DNBSAZ76JBZ/", "embedded_path": "experiments_in_set.biosample.badges", "item": {"messages": ["Biosample missing doubling_number"], "badge": {"commendation": null, "warning": "Biosample Metadata Incomplete", "uuid": "2b2cc7ff-b7a8-4138-9a6c-22884fc71690", "@id": "/badges/biosample-metadata-incomplete/", "badge_icon": "/static/img/badges/biosample-icon.svg", "description": "Biosample is missing metadata information required as part of the standards implemented by the 4DN Samples working group."}}}]}, "validation-errors": []}