{"lab": {"uuid": "8a369182-b5c9-4912-a0d5-b942b5847fed", "status": "current", "display_title": "Jan-Michael Peters, IMP", "@type": ["Lab", "Item"], "title": "Jan-Michael Peters, IMP", "@id": "/labs/jan-michael-peters-lab/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.8a369182-b5c9-4912-a0d5-b942b5847fed"]}}, "award": {"center_title": "External", "project": "External", "status": "current", "uuid": "12a92962-8265-4fc0-b2f8-cf14f05db58b", "display_title": "EXTERNAL AWARD", "@type": ["Award", "Item"], "description": "Funding source is from outside 4DN.", "name": "external-award", "center": "External", "@id": "/awards/external-award/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "badges": [{"badge": {"badge_icon": "/static/img/badges/biosample-icon.svg", "title": "Biosample Metadata Incomplete", "badge_classification": "Warning", "@id": "/badges/biosample-metadata-incomplete/", "status": "released", "display_title": "Biosample Metadata Incomplete", "description": "Biosample is missing metadata information required as part of the standards implemented by the 4DN Samples working group.", "@type": ["Badge", "Item"], "warning": "Biosample Metadata Incomplete", "uuid": "2b2cc7ff-b7a8-4138-9a6c-22884fc71690", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "messages": ["Biosample missing culture_harvest_date", "Biosample missing doubling_number", "Biosample missing passage_number", "Biosample missing culture_duration", "Biosample missing morphology_image"]}], "status": "released", "aliases": ["4dn-dcic-lab:SAMN07524529"], "dbxrefs": ["BioSample:SAMN07524529"], "accession": "4DNBSZHB3Q9R", "biosource": [{"lab": {"display_title": "4DN DCIC, HMS", "@id": "/labs/4dn-dcic-lab/", "status": "current", "@type": ["Lab", "Item"], "uuid": "828cd4fe-ebb0-4b36-a94a-d2e3a36cc989", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.828cd4fe-ebb0-4b36-a94a-d2e3a36cc989"]}}, "award": {"uuid": "b0b9c607-f8b4-4f02-93f4-9895b461334b", "@id": "/awards/1U01CA200059-01/", "status": "current", "@type": ["Award", "Item"], "display_title": "4D NUCLEOME NETWORK DATA COORDINATION AND INTEGRATION CENTER - PHASE I", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "status": "released", "tissue": {"preferred_name": "uterine cervix", "synonyms": ["uterine cervix", "caudal segment of uterus", "cervix uteri", "neck of uterus", "cervical canal of uterus", "canalis cervicis uteri"], "display_title": "uterine cervix", "term_url": "http://purl.obolibrary.org/obo/UBERON_0000002", "term_name": "uterine cervix", "status": "released", "term_id": "UBERON:0000002", "uuid": "600fc714-c007-441b-b3a7-3d164ddc2689", "@id": "/ontology-terms/UBERON:0000002/", "@type": ["OntologyTerm", "Item"], "slim_terms": [{"term_url": "http://purl.obolibrary.org/obo/UBERON_0000990", "status": "released", "synonyms": ["reproductive system - animals", "genitalia", "animal reproductive system", "genital system", "Geschlechtsorgan", "systemata genitalia", "reproductive tissue", "organa genitalia", "Entire reproductive system"], "uuid": "111127bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0000990/", "term_name": "reproductive system", "term_id": "UBERON:0000990", "display_title": "reproductive system", "preferred_name": "reproductive system", "@type": ["OntologyTerm", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"term_url": "http://purl.obolibrary.org/obo/UBERON_0000926", "status": "released", "synonyms": ["entire mesoderm", "embryonic mesoderm", "mesodermal mantle", "Entire mesoderm"], "uuid": "111120bc-8535-4448-903e-854af460a233", "@id": "/ontology-terms/UBERON:0000926/", "term_name": "mesoderm", "term_id": "UBERON:0000926", "display_title": "mesoderm", "preferred_name": "mesoderm", "@type": ["OntologyTerm", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "aliases": ["4dn-dcic-lab:HeLa-Kyoto-Cells"], "accession": "4DNSRIZVADRC", "cell_line": {"term_name": "HeLa cell line", "term_url": "http://purl.obolibrary.org/obo/OBI_1110032", "@id": "/ontology-terms/OBI:1110032/", "@type": ["OntologyTerm", "Item"], "term_id": "OBI:1110032", "preferred_name": "HeLa cell line", "display_title": "HeLa cell line", "status": "released", "uuid": "ad1dc43c-1ab2-441c-a7c4-ce229e994444", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "individual": {"uuid": "8b2bd1cc-3d14-441c-bd82-8bc004ac326a", "display_title": "4DNINEL8T2GK", "@type": ["IndividualHuman", "Individual", "Item"], "sex": "female", "@id": "/individuals-human/4DNINEL8T2GK/", "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "description": "HeLa Kyoto cell line", "date_created": "2019-02-20T18:18:51.597845+00:00", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2021-05-10T20:18:18.647264+00:00"}, "biosource_type": "immortalized cell line", "cell_line_tier": "Unclassified", "public_release": "2019-06-18", "schema_version": "2", "project_release": "2019-06-18", "@id": "/biosources/4DNSRIZVADRC/", "@type": ["Biosource", "Item"], "uuid": "abcaff6b-c97e-4e25-8297-67d5a0e7ad52", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "HeLa cell line - 4DNSRIZVADRC", "external_references": [], "biosource_name": "HeLa cell line", "biosource_category": ["Other"], "organism": {"@id": "/organisms/9606/", "name": "human", "@type": ["Organism", "Item"], "status": "released", "uuid": "7745b647-ff15-4ff3-9ced-b897d4e2983c", "display_title": "H. sapiens", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "treatments": [{"uuid": "89b0772e-e457-4591-a60f-96edfaa4a94e", "@type": ["TreatmentRnai", "Treatment", "Item"], "@id": "/treatments-rnai/89b0772e-e457-4591-a60f-96edfaa4a94e/", "status": "released", "display_title": "siRNA of WAPL gene", "treatment_type": "RNAi", "target": [{"@type": ["BioFeature", "Item"], "@id": "/bio-features/497bfb03-8730-46ae-a219-6fd783d73d64/", "uuid": "497bfb03-8730-46ae-a219-6fd783d73d64", "display_title": "WAPL gene", "organism_name": "human", "status": "released", "feature_type": {"display_title": "gene", "preferred_name": "gene", "status": "released", "@id": "/ontology-terms/SO:0000704/", "term_name": "gene", "uuid": "0231da78-1adc-4b8a-89b9-4f91908412a3", "term_id": "SO:0000704", "@type": ["OntologyTerm", "Item"], "term_url": "http://purl.obolibrary.org/obo/SO_0000704", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "relevant_genes": [{"geneid": "23063", "display_title": "WAPL", "uuid": "fd33265b-bdd0-4bba-a695-b8acd53b35d8", "status": "released", "preferred_symbol": "WAPL", "@id": "/genes/23063/", "@type": ["Gene", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "aaa38665-c44e-491e-806d-42a60317e3be", "@type": ["TreatmentRnai", "Treatment", "Item"], "@id": "/treatments-rnai/aaa38665-c44e-491e-806d-42a60317e3be/", "status": "released", "display_title": "siRNA of PDS5A gene", "treatment_type": "RNAi", "target": [{"@type": ["BioFeature", "Item"], "@id": "/bio-features/ebfee5e3-e806-4612-853a-27c6dd2a4bc4/", "uuid": "ebfee5e3-e806-4612-853a-27c6dd2a4bc4", "display_title": "PDS5A gene", "organism_name": "human", "status": "released", "feature_type": {"display_title": "gene", "preferred_name": "gene", "status": "released", "@id": "/ontology-terms/SO:0000704/", "term_name": "gene", "uuid": "0231da78-1adc-4b8a-89b9-4f91908412a3", "term_id": "SO:0000704", "@type": ["OntologyTerm", "Item"], "term_url": "http://purl.obolibrary.org/obo/SO_0000704", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "relevant_genes": [{"geneid": "23244", "display_title": "PDS5A", "uuid": "fc012b11-c7ee-4dc7-89e3-82dda35995e7", "status": "released", "preferred_symbol": "PDS5A", "@id": "/genes/23244/", "@type": ["Gene", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"uuid": "304e3462-0104-45e4-b434-36ad51127bcf", "@type": ["TreatmentRnai", "Treatment", "Item"], "@id": "/treatments-rnai/304e3462-0104-45e4-b434-36ad51127bcf/", "status": "released", "display_title": "siRNA of PDS5B gene", "treatment_type": "RNAi", "target": [{"@type": ["BioFeature", "Item"], "@id": "/bio-features/bd48f930-af2b-4b05-b264-cb240ee55312/", "uuid": "bd48f930-af2b-4b05-b264-cb240ee55312", "display_title": "PDS5B gene", "organism_name": "human", "status": "released", "feature_type": {"display_title": "gene", "preferred_name": "gene", "status": "released", "@id": "/ontology-terms/SO:0000704/", "term_name": "gene", "uuid": "0231da78-1adc-4b8a-89b9-4f91908412a3", "term_id": "SO:0000704", "@type": ["OntologyTerm", "Item"], "term_url": "http://purl.obolibrary.org/obo/SO_0000704", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "relevant_genes": [{"geneid": "23047", "display_title": "PDS5B", "uuid": "fa0159e2-3770-44df-877d-7b576bb46fa9", "status": "released", "preferred_symbol": "PDS5B", "@id": "/genes/23047/", "@type": ["Gene", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "description": "Hela-Kyoto cells on G1 phase with Scc1 protein depleted using an AID system and  WAPL, PDS5A and PDS5B transcripts depleted using RNAi", "date_created": "2019-02-20T18:23:37.307158+00:00", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2019-06-18T19:04:45.873795+00:00"}, "modifications": [{"display_title": "Crispr generated mEGFP-tagged RAD21", "status": "released", "uuid": "4b81f5e1-9d24-4bd5-8470-6ea0bfe6fc91", "override_modification_name": "Crispr generated mEGFP-tagged RAD21", "genomic_change": "insertion", "@id": "/modifications/4b81f5e1-9d24-4bd5-8470-6ea0bfe6fc91/", "modification_type": "Crispr", "@type": ["Modification", "Item"], "target_of_mod": [{"status": "released", "@type": ["BioFeature", "Item"], "display_title": "RAD21 gene", "@id": "/bio-features/c3ce0816-5481-4342-b95b-6c8b93199744/", "organism_name": "human", "uuid": "c3ce0816-5481-4342-b95b-6c8b93199744", "feature_type": {"preferred_name": "gene", "term_url": "http://purl.obolibrary.org/obo/SO_0000704", "term_id": "SO:0000704", "uuid": "0231da78-1adc-4b8a-89b9-4f91908412a3", "@id": "/ontology-terms/SO:0000704/", "term_name": "gene", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "gene", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "relevant_genes": [{"status": "released", "geneid": "5885", "preferred_symbol": "RAD21", "uuid": "a093769c-d596-4a26-8916-06ae491575ba", "@id": "/genes/5885/", "@type": ["Gene", "Item"], "display_title": "RAD21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"display_title": "Crispr generated AID-tagged RAD21", "status": "released", "uuid": "0e014bba-99a7-41e5-9680-206bb5a25982", "override_modification_name": "Crispr generated AID-tagged RAD21", "genomic_change": "insertion", "@id": "/modifications/0e014bba-99a7-41e5-9680-206bb5a25982/", "modification_type": "Crispr", "@type": ["Modification", "Item"], "target_of_mod": [{"status": "released", "@type": ["BioFeature", "Item"], "display_title": "RAD21 gene", "@id": "/bio-features/c3ce0816-5481-4342-b95b-6c8b93199744/", "organism_name": "human", "uuid": "c3ce0816-5481-4342-b95b-6c8b93199744", "feature_type": {"preferred_name": "gene", "term_url": "http://purl.obolibrary.org/obo/SO_0000704", "term_id": "SO:0000704", "uuid": "0231da78-1adc-4b8a-89b9-4f91908412a3", "@id": "/ontology-terms/SO:0000704/", "term_name": "gene", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "gene", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "relevant_genes": [{"status": "released", "geneid": "5885", "preferred_symbol": "RAD21", "uuid": "a093769c-d596-4a26-8916-06ae491575ba", "@id": "/genes/5885/", "@type": ["Gene", "Item"], "display_title": "RAD21", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"display_title": "Tir1 random insertion", "status": "released", "uuid": "4ec97b91-8bec-44bb-a43c-655f5d4a246e", "override_modification_name": "Tir1 random insertion", "genomic_change": "insertion", "@id": "/modifications/4ec97b91-8bec-44bb-a43c-655f5d4a246e/", "modification_type": "Stable Transfection", "@type": ["Modification", "Item"], "target_of_mod": [{"status": "released", "@type": ["BioFeature", "Item"], "display_title": "Tir1 (Japanese rice)", "@id": "/bio-features/9a6e3474-a523-4d87-8903-65031b2cf024/", "organism_name": "Japanese rice", "preferred_label": "Tir1", "uuid": "9a6e3474-a523-4d87-8903-65031b2cf024", "feature_type": {"preferred_name": "protein", "term_url": "http://purl.obolibrary.org/obo/SO_0000104", "term_id": "SO:0000104", "uuid": "91f427e6-5246-4992-8123-b4f8fa9eef01", "@id": "/ontology-terms/SO:0000104/", "term_name": "polypeptide", "status": "released", "@type": ["OntologyTerm", "Item"], "display_title": "protein", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "public_release": "2019-06-18", "schema_version": "2", "project_release": "2019-06-18", "cell_culture_details": [{"lab": {"@type": ["Lab", "Item"], "@id": "/labs/4dn-dcic-lab/", "uuid": "828cd4fe-ebb0-4b36-a94a-d2e3a36cc989", "status": "current", "display_title": "4DN DCIC, HMS", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.828cd4fe-ebb0-4b36-a94a-d2e3a36cc989"]}}, "award": {"display_title": "4D NUCLEOME NETWORK DATA COORDINATION AND INTEGRATION CENTER - PHASE I", "status": "current", "@id": "/awards/1U01CA200059-01/", "@type": ["Award", "Item"], "uuid": "b0b9c607-f8b4-4f02-93f4-9895b461334b", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "status": "released", "aliases": ["4dn-dcic-lab:synchronization_G1_phase"], "description": "G1 phase synchronization", "date_created": "2019-02-20T18:18:51.989609+00:00", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2019-06-18T19:05:18.763023+00:00"}, "public_release": "2019-06-18", "schema_version": "2", "project_release": "2019-06-18", "culture_start_date": "2017-02-28", "protocols_additional": [{"display_title": "Wutz-et-all-2017-Synchronization-protocol.pdf", "@type": ["Protocol", "Item"], "status": "released", "uuid": "dba10994-98bc-40f9-a175-6ca7226a3b04", "@id": "/protocols/dba10994-98bc-40f9-a175-6ca7226a3b04/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "synchronization_stage": "G1", "in_vitro_differentiated": "No", "@id": "/biosample-cell-cultures/6cfe9daf-ee60-47f5-8e38-497cb75f6971/", "@type": ["BiosampleCellCulture", "Item"], "uuid": "6cfe9daf-ee60-47f5-8e38-497cb75f6971", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "BiosampleCellCulture from 2019-02-20", "external_references": []}], "@id": "/biosamples/4DNBSZHB3Q9R/", "@type": ["Biosample", "Item"], "uuid": "ee6f675a-1dda-419a-9047-a8d42f1fcbb9", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "4DNBSZHB3Q9R", "external_references": [{"ref": "BioSample:SAMN07524529", "uri": "https://www.ncbi.nlm.nih.gov/biosample/SAMN07524529"}], "modifications_summary": "Crispr generated mEGFP-tagged RAD21 and Crispr generated AID-tagged RAD21 and Tir1 random insertion", "modifications_summary_short": "Crispr generated mEGFP-tagged RAD21", "treatments_summary": "siRNA of WAPL gene and siRNA of PDS5A gene and siRNA of PDS5B gene", "tissue_organ_info": {"tissue_source": "uterine cervix", "organ_system": ["reproductive system", "mesoderm"]}, "biosource_summary": "HeLa cell line", "biosample_type": "immortalized cells", "biosample_category": ["Other"], "@context": "/terms/", "aggregated-items": {"badges": [{"parent": "/biosamples/4DNBSZHB3Q9R/", "embedded_path": "badges", "item": {"messages": ["Biosample missing culture_harvest_date", "Biosample missing doubling_number", "Biosample missing passage_number", "Biosample missing culture_duration", "Biosample missing morphology_image"], "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": []}