{"lab": {"uuid": "4dfac8f5-a868-4b29-9c11-a0932130e121", "title": "Benoit Bruneau, UCSF", "@type": ["Lab", "Item"], "@id": "/labs/benoit-bruneau-lab/", "correspondence": [{"contact_email": "YmVub2l0LmJydW5lYXVAZ2xhZHN0b25lLnVjc2YuZWR1", "@id": "/users/c015dffd-4ca1-4070-905f-8a04b3754b2b/", "display_title": "Benoit Bruneau"}], "display_title": "Benoit Bruneau, UCSF", "status": "current", "pi": {"error": "no view permissions"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.4dfac8f5-a868-4b29-9c11-a0932130e121"]}}, "award": {"center_title": "External", "@id": "/awards/external-award/", "status": "current", "@type": ["Award", "Item"], "project": "External", "center": "External", "display_title": "EXTERNAL AWARD", "description": "Funding source is from outside 4DN.", "name": "external-award", "uuid": "12a92962-8265-4fc0-b2f8-cf14f05db58b", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "md5sum": "08e8f60e15c958cb9bce0523b45b2955", "status": "released", "aliases": ["4dn-dcic-lab:SRR5517510_2_fq"], "dbxrefs": ["SRA:SRR5517510"], "filename": "SRR5517510_2.fastq.gz", "accession": "4DNFIUTUV5D3", "file_size": 6634326975, "file_type": "reads", "instrument": "Illumina NextSeq 500", "paired_end": "2", "file_format": {"@type": ["FileFormat", "Item"], "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "display_title": "fastq", "@id": "/file-formats/fastq/", "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "read_length": 76, "date_created": "2018-11-07T21:10:29.408340+00:00", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2020-04-08T06:10:10.637885+00:00"}, "related_files": [{"file": {"accession": "4DNFIHQVKKW2", "status": "released", "display_title": "4DNFIHQVKKW2.fastq.gz", "@type": ["FileFastq", "File", "Item"], "uuid": "6df848cf-0093-43ab-ab1a-5e9a684eaf49", "@id": "/files-fastq/4DNFIHQVKKW2/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "relationship_type": "paired with"}], "content_md5sum": "e8bf15a8c7e8fe1e0bf164ace9ffc118", "public_release": "2018-12-06", "quality_metric": {"url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIUTUV5D3/fastqc_report.html", "uuid": "60a7c194-f283-4019-837e-12a74157ae8e", "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "Total Sequences": 144322673, "Sequence length": "76", "@id": "/quality-metrics-fastqc/60a7c194-f283-4019-837e-12a74157ae8e/", "display_title": "QualityMetricFastqc from 2018-11-20", "overall_quality_status": "PASS", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "schema_version": "2", "file_first_line": "@1", "project_release": "2018-12-06", "file_classification": "raw file", "beta_actin_sense_count": 2210, "beta_actin_antisense_count": 1071, "@id": "/files-fastq/4DNFIUTUV5D3/", "@type": ["FileFastq", "File", "Item"], "uuid": "f669ec35-f212-45c4-8bbb-1731eb25eb0d", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "4DNFIUTUV5D3.fastq.gz", "external_references": [{"ref": "SRA:SRR5517510", "uri": "https://www.ncbi.nlm.nih.gov/sra/?term=SRR5517510"}], "experiments": [{"accession": "4DNEXNMK29Y2", "@type": ["ExperimentSeq", "Experiment", "Item"], "uuid": "db7dce42-d462-466b-a02f-33cc9ab06a43", "display_title": "RNA-seq on ES-E14TG2a with CTCF-AID - 4DNEXNMK29Y2", "status": "released", "@id": "/experiments-seq/4DNEXNMK29Y2/", "biosample": {"display_title": "4DNBSWXKXWMN", "accession": "4DNBSWXKXWMN", "treatments_summary": "None", "biosource_summary": "ES-E14TG2a with CTCF-AID", "modifications_summary": "None", "status": "released", "@type": ["Biosample", "Item"], "uuid": "3781c8b2-7156-448b-877c-fdd6ca81fe48", "@id": "/biosamples/4DNBSWXKXWMN/", "biosource": [{"display_title": "ES-E14TG2a with CTCF-AID - 4DNSRLMKMT14", "@id": "/biosources/4DNSRLMKMT14/", "@type": ["Biosource", "Item"], "uuid": "9fd3c189-7169-4336-bfd1-545c3b53ca44", "cell_line_tier": "Unclassified", "override_biosource_name": "ES-E14TG2a with CTCF-AID", "biosource_type": "stem cell derived cell line", "status": "released", "modifications": [{"@id": "/modifications/4c0507ac-3639-4afa-a0d7-f0c969ac0f09/", "display_title": "CTCF tagged with AID-eGFP", "@type": ["Modification", "Item"], "modification_type": "Crispr", "genomic_change": "insertion", "override_modification_name": "CTCF tagged with AID-eGFP", "status": "released", "uuid": "4c0507ac-3639-4afa-a0d7-f0c969ac0f09", "target_of_mod": [{"uuid": "d9c1b491-a1d8-4b93-9d33-fce884c4257e", "status": "released", "@id": "/bio-features/d9c1b491-a1d8-4b93-9d33-fce884c4257e/", "organism_name": "mouse", "@type": ["BioFeature", "Item"], "display_title": "Ctcf mouse gene", "relevant_genes": [{"@id": "/genes/13018/", "status": "released", "uuid": "a8dfeefd-d3bc-45cb-be3b-65d7bb4de27e", "@type": ["Gene", "Item"], "display_title": "Ctcf", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "feature_type": {"@type": ["OntologyTerm", "Item"], "status": "released", "@id": "/ontology-terms/SO:0000704/", "uuid": "0231da78-1adc-4b8a-89b9-4f91908412a3", "display_title": "gene", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"@id": "/modifications/4ec97b91-8bec-44bb-a43c-655f5d4a246e/", "display_title": "Tir1 random insertion", "@type": ["Modification", "Item"], "modification_type": "Stable Transfection", "genomic_change": "insertion", "override_modification_name": "Tir1 random insertion", "status": "released", "uuid": "4ec97b91-8bec-44bb-a43c-655f5d4a246e", "target_of_mod": [{"uuid": "9a6e3474-a523-4d87-8903-65031b2cf024", "preferred_label": "Tir1", "status": "released", "@id": "/bio-features/9a6e3474-a523-4d87-8903-65031b2cf024/", "organism_name": "Japanese rice", "@type": ["BioFeature", "Item"], "display_title": "Tir1 (Japanese rice)", "feature_type": {"@type": ["OntologyTerm", "Item"], "status": "released", "@id": "/ontology-terms/SO:0000104/", "uuid": "91f427e6-5246-4992-8123-b4f8fa9eef01", "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"]}}], "cell_line": {"@id": "/ontology-terms/EFO:0006275/", "uuid": "2262fd9b-3185-4c65-8ad5-bfe65e986954", "preferred_name": "ES-E14TG2a", "status": "released", "display_title": "ES-E14TG2a", "term_name": "ES-E14TG2a", "@type": ["OntologyTerm", "Item"], "term_id": "EFO:0006275", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "organism": {"status": "released", "display_title": "M. musculus", "uuid": "3413218c-3d86-498b-a0a2-9a406638e786", "name": "mouse", "@id": "/organisms/10090/", "@type": ["Organism", "Item"], "scientific_name": "Mus musculus", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "tissue": {"term_id": "CL:0000034", "preferred_name": "stem cell", "uuid": "082f5be3-3617-4d3e-9ee9-78df53a71802", "display_title": "stem cell", "status": "released", "@id": "/ontology-terms/CL:0000034/", "term_name": "stem cell", "@type": ["OntologyTerm", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "individual": {"uuid": "1b2fa35a-6173-431f-b2e2-db2e18017870", "@type": ["IndividualMouse", "Individual", "Item"], "status": "released", "display_title": "4DNINOXRXEQP", "@id": "/individuals-mouse/4DNINOXRXEQP/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "experiment_sets": [{"accession": "4DNESKPSB8I2", "@id": "/experiment-set-replicates/4DNESKPSB8I2/", "experimentset_type": "replicate", "uuid": "65aa0541-1da1-43da-b098-2c06f2013167", "status": "released", "@type": ["ExperimentSetReplicate", "ExperimentSet", "Item"], "display_title": "4DNESKPSB8I2", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "experiment_type": {"title": "RNA-seq", "uuid": "19f848e6-7c52-4b8b-8aa8-e82ea0a968ce", "status": "released", "@type": ["ExperimentType", "Item"], "@id": "/experiment-types/rna-seq/", "display_title": "RNA-seq", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "last_modified": {"date_modified": "2019-12-03T20:09:52.188262+00:00"}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "file_type_detailed": "reads (fastq)", "track_and_facet_info": {"experimental_lab": "Benoit Bruneau, UCSF", "experiment_type": "RNA-seq", "experiment_bucket": "raw file", "replicate_info": "Biorep 3, Techrep 1", "biosource_name": "ES-E14TG2a with CTCF-AID", "lab_name": "Benoit Bruneau, UCSF"}, "title": "4DNFIUTUV5D3", "href": "/files-fastq/4DNFIUTUV5D3/@@download/4DNFIUTUV5D3.fastq.gz", "upload_key": "f669ec35-f212-45c4-8bbb-1731eb25eb0d/4DNFIUTUV5D3.fastq.gz", "open_data_url": "https://4dn-open-data-public.s3.amazonaws.com/fourfront-webprod/files/f669ec35-f212-45c4-8bbb-1731eb25eb0d/4DNFIUTUV5D3.fastq.gz", "tsv_notes": "", "workflow_run_inputs": [{"@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "uuid": "02f94453-ac8e-43f4-8185-27a6ec869c41", "display_title": "rna-strandedness v2 run 2019-11-27 11:36:38.682276", "status": "released", "@id": "/workflow-runs-awsem/02f94453-ac8e-43f4-8185-27a6ec869c41/", "output_files": [{"workflow_argument_name": "match_count"}], "input_files": [{"workflow_argument_name": "ACTB_reference", "value": {"display_title": "4DNFIAQ4BI8Y.txt", "accession": "4DNFIAQ4BI8Y", "status": "released", "@type": ["FileReference", "File", "Item"], "@id": "/files-reference/4DNFIAQ4BI8Y/", "filename": "ACTB_mouse_reference_21kmer.txt", "uuid": "b59c4b30-52c9-4b30-a455-dfb491df940a", "file_format": {"@type": ["FileFormat", "Item"], "status": "released", "uuid": "0cd4e777-a596-4927-95c8-b07716121aa3", "file_format": "txt", "display_title": "txt", "@id": "/file-formats/txt/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "fastq", "value": {"display_title": "4DNFIUTUV5D3.fastq.gz", "accession": "4DNFIUTUV5D3", "status": "released", "@type": ["FileFastq", "File", "Item"], "@id": "/files-fastq/4DNFIUTUV5D3/", "filename": "SRR5517510_2.fastq.gz", "uuid": "f669ec35-f212-45c4-8bbb-1731eb25eb0d", "file_format": {"@type": ["FileFormat", "Item"], "status": "released", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "display_title": "fastq", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"uuid": "af97597e-877a-40b7-b211-98ec0cfb17b4", "@id": "/workflows/4DNWFRNASDV1/", "title": "Beta-actin gene 21kmer count for RNA-seq data", "display_title": "Beta-actin gene 21kmer count for RNA-seq data - 4DNWFRNASDV1", "status": "released", "@type": ["Workflow", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "uuid": "1a8cddad-0c6e-4ff5-b798-905bf1021524", "display_title": "encode-rnaseq-unstranded 1.1 run 2019-12-01 21:37:19.719205", "status": "released", "@id": "/workflow-runs-awsem/1a8cddad-0c6e-4ff5-b798-905bf1021524/", "output_files": [{"workflow_argument_name": "rna.outbam", "value": {"accession": "4DNFIXVGLIPG", "display_title": "4DNFIXVGLIPG.bam", "uuid": "59c369cd-cbd0-4acc-be97-61c343e92f0b", "@id": "/files-processed/4DNFIXVGLIPG/", "status": "released", "@type": ["FileProcessed", "File", "Item"], "file_format": {"display_title": "bam", "@type": ["FileFormat", "Item"], "file_format": "bam", "status": "released", "uuid": "d13d06cf-218e-4f61-aaf0-91f226248b3c", "@id": "/file-formats/bam/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.outbw", "value": {"accession": "4DNFIQ4X4VQ4", "display_title": "4DNFIQ4X4VQ4.bw", "uuid": "87c498aa-1faa-45a4-976d-ea633a7483ec", "@id": "/files-processed/4DNFIQ4X4VQ4/", "status": "released", "@type": ["FileProcessed", "File", "Item"], "file_format": {"display_title": "bw", "@type": ["FileFormat", "Item"], "file_format": "bw", "status": "released", "uuid": "d1311111-218e-4f61-aaf0-91f226248b2c", "@id": "/file-formats/bw/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.gene_expression", "value": {"accession": "4DNFIHPPLSJ9", "display_title": "4DNFIHPPLSJ9.tsv", "uuid": "b830a180-855a-4624-8b44-2d5536912e92", "@id": "/files-processed/4DNFIHPPLSJ9/", "status": "released", "@type": ["FileProcessed", "File", "Item"], "file_format": {"display_title": "tsv", "@type": ["FileFormat", "Item"], "file_format": "tsv", "status": "released", "uuid": "5e8f64b8-6323-410a-8af2-05aba0472f8e", "@id": "/file-formats/tsv/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.isoform_expression", "value": {"accession": "4DNFI6Q2KUM4", "display_title": "4DNFI6Q2KUM4.tsv", "uuid": "30e15bdc-8362-482d-b345-bb7e9a42eb21", "@id": "/files-processed/4DNFI6Q2KUM4/", "status": "released", "@type": ["FileProcessed", "File", "Item"], "file_format": {"display_title": "tsv", "@type": ["FileFormat", "Item"], "file_format": "tsv", "status": "released", "uuid": "5e8f64b8-6323-410a-8af2-05aba0472f8e", "@id": "/file-formats/tsv/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.anno_flagstat_qc_json", "value_qc": {"@id": "/quality-metrics-rnaseq/dad883eb-72f3-4314-9e70-a8e5f21ec98e/", "uuid": "dad883eb-72f3-4314-9e70-a8e5f21ec98e", "display_title": "QualityMetricRnaseq from 2019-12-02", "overall_quality_status": "PASS", "@type": ["QualityMetricRnaseq", "QualityMetric", "Item"], "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.genome_flagstat_qc_json", "value_qc": {"@id": "/quality-metrics-rnaseq/80bf6fe0-c5ec-4d27-b0a1-264f011f1b68/", "uuid": "80bf6fe0-c5ec-4d27-b0a1-264f011f1b68", "display_title": "QualityMetricRnaseq from 2019-12-02", "overall_quality_status": "PASS", "@type": ["QualityMetricRnaseq", "QualityMetric", "Item"], "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.align_log_json", "value_qc": {"@id": "/quality-metrics-rnaseq/80bf6fe0-c5ec-4d27-b0a1-264f011f1b68/", "uuid": "80bf6fe0-c5ec-4d27-b0a1-264f011f1b68", "display_title": "QualityMetricRnaseq from 2019-12-02", "overall_quality_status": "PASS", "@type": ["QualityMetricRnaseq", "QualityMetric", "Item"], "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.qc_json", "value_qc": {"@id": "/quality-metrics-rnaseq/dad883eb-72f3-4314-9e70-a8e5f21ec98e/", "uuid": "dad883eb-72f3-4314-9e70-a8e5f21ec98e", "display_title": "QualityMetricRnaseq from 2019-12-02", "overall_quality_status": "PASS", "@type": ["QualityMetricRnaseq", "QualityMetric", "Item"], "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "input_files": [{"workflow_argument_name": "rna.align_index", "value": {"display_title": "4DNFINJIU765.starIndex.tgz", "accession": "4DNFINJIU765", "status": "released", "@type": ["FileReference", "File", "Item"], "@id": "/files-reference/4DNFINJIU765/", "uuid": "7ae5a4a4-c53a-4344-ab3f-ebbf487b5efd", "file_format": {"@type": ["FileFormat", "Item"], "status": "released", "uuid": "192d6d3a-6975-4aa5-bcca-38b7dac97ac1", "file_format": "starIndex", "display_title": "starIndex", "@id": "/file-formats/starIndex/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.chrom_sizes", "value": {"display_title": "4DNFIBP173GC.chrom.sizes", "accession": "4DNFIBP173GC", "status": "released", "@type": ["FileReference", "File", "Item"], "@id": "/files-reference/4DNFIBP173GC/", "filename": "mm10_no_alt.chrom.sizes", "uuid": "be0a9819-d2ce-4422-be4b-234fb1677dd9", "file_format": {"@type": ["FileFormat", "Item"], "status": "released", "uuid": "d13d06cf-218e-4f61-55f0-93f226248b2c", "file_format": "chromsizes", "display_title": "chromsizes", "@id": "/file-formats/chromsizes/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.fastqs_R1", "value": {"display_title": "4DNFIHQVKKW2.fastq.gz", "accession": "4DNFIHQVKKW2", "status": "released", "@type": ["FileFastq", "File", "Item"], "@id": "/files-fastq/4DNFIHQVKKW2/", "filename": "SRR5517510_1.fastq.gz", "uuid": "6df848cf-0093-43ab-ab1a-5e9a684eaf49", "file_format": {"@type": ["FileFormat", "Item"], "status": "released", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "display_title": "fastq", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.fastqs_R2", "value": {"display_title": "4DNFIUTUV5D3.fastq.gz", "accession": "4DNFIUTUV5D3", "status": "released", "@type": ["FileFastq", "File", "Item"], "@id": "/files-fastq/4DNFIUTUV5D3/", "filename": "SRR5517510_2.fastq.gz", "uuid": "f669ec35-f212-45c4-8bbb-1731eb25eb0d", "file_format": {"@type": ["FileFormat", "Item"], "status": "released", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "display_title": "fastq", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.rna_qc_tr_id_to_gene_type_tsv", "value": {"display_title": "4DNFINBJ25DT.tsv", "accession": "4DNFINBJ25DT", "status": "released", "@type": ["FileReference", "File", "Item"], "@id": "/files-reference/4DNFINBJ25DT/", "uuid": "fa94b4cb-3d22-4edd-afaa-f2f98bbf9ecc", "file_format": {"@type": ["FileFormat", "Item"], "status": "released", "uuid": "5e8f64b8-6323-410a-8af2-05aba0472f8e", "file_format": "tsv", "display_title": "tsv", "@id": "/file-formats/tsv/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}, {"workflow_argument_name": "rna.rsem_index", "value": {"display_title": "4DNFI2GFI8KN.rsemindex.tgz", "accession": "4DNFI2GFI8KN", "status": "released", "@type": ["FileReference", "File", "Item"], "@id": "/files-reference/4DNFI2GFI8KN/", "uuid": "2995ef5c-4c3f-45d9-bd45-a7b2af4ccb59", "file_format": {"@type": ["FileFormat", "Item"], "status": "released", "uuid": "d444ba45-6cfb-4524-9637-9c55ab39abe4", "file_format": "rsemIndex", "display_title": "rsemIndex", "@id": "/file-formats/rsemIndex/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"uuid": "37458aca-8319-4e06-9cf2-da770f1a6252", "@id": "/workflows/4DNWFBJ47YRR/", "title": "RNA-seq data processing pipeline, unstranded, 1.1", "display_title": "RNA-seq data processing pipeline, unstranded, 1.1 - 4DNWFBJ47YRR", "status": "released", "@type": ["Workflow", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "uuid": "50224a6d-9b6f-49e5-9d7f-0953087c05e6", "display_title": "fastqc v1 run 2018-11-19 22:11:06.393919", "status": "released", "@id": "/workflow-runs-awsem/50224a6d-9b6f-49e5-9d7f-0953087c05e6/", "output_files": [{"workflow_argument_name": "report_zip", "value_qc": {"@id": "/quality-metrics-fastqc/60a7c194-f283-4019-837e-12a74157ae8e/", "url": "https://s3.amazonaws.com/elasticbeanstalk-fourfront-webprod-wfoutput/4DNFIUTUV5D3/fastqc_report.html", "uuid": "60a7c194-f283-4019-837e-12a74157ae8e", "display_title": "QualityMetricFastqc from 2018-11-20", "overall_quality_status": "PASS", "@type": ["QualityMetricFastqc", "QualityMetric", "Item"], "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "input_files": [{"workflow_argument_name": "input_fastq", "value": {"display_title": "4DNFIUTUV5D3.fastq.gz", "accession": "4DNFIUTUV5D3", "status": "released", "@type": ["FileFastq", "File", "Item"], "@id": "/files-fastq/4DNFIUTUV5D3/", "filename": "SRR5517510_2.fastq.gz", "uuid": "f669ec35-f212-45c4-8bbb-1731eb25eb0d", "file_format": {"@type": ["FileFormat", "Item"], "status": "released", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "display_title": "fastq", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"uuid": "2324ad76-ff37-4157-8bcc-3ce72b7dace9", "@id": "/workflows/4DNWFAW5VTA5/", "title": "FastQC v1", "display_title": "FastQC v1 - 4DNWFAW5VTA5", "status": "released", "@type": ["Workflow", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "uuid": "031beb83-3eef-496a-a37a-127c34d22c2d", "display_title": "md5 0.2.6 run 2018-11-19 22:11:01.948098", "status": "released", "@id": "/workflow-runs-awsem/031beb83-3eef-496a-a37a-127c34d22c2d/", "output_files": [{"workflow_argument_name": "report"}], "input_files": [{"workflow_argument_name": "input_file", "value": {"display_title": "4DNFIUTUV5D3.fastq.gz", "accession": "4DNFIUTUV5D3", "status": "released", "@type": ["FileFastq", "File", "Item"], "@id": "/files-fastq/4DNFIUTUV5D3/", "filename": "SRR5517510_2.fastq.gz", "uuid": "f669ec35-f212-45c4-8bbb-1731eb25eb0d", "file_format": {"@type": ["FileFormat", "Item"], "status": "released", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "display_title": "fastq", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"uuid": "c77a117b-9a58-477e-aaa5-291a109a99f6", "@id": "/workflows/4DNWF2HFF82B/", "title": "md5 0.2.6", "display_title": "md5 0.2.6 - 4DNWF2HFF82B", "status": "released", "@type": ["Workflow", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, {"@type": ["WorkflowRunAwsem", "WorkflowRun", "Item"], "uuid": "de816bfe-d920-4665-a0b6-1c86b99aea11", "display_title": "fastq-first-line v2 run 2020-04-08 06:05:01.104974", "status": "released", "@id": "/workflow-runs-awsem/de816bfe-d920-4665-a0b6-1c86b99aea11/", "output_files": [{"workflow_argument_name": "first_line"}], "input_files": [{"workflow_argument_name": "fastq", "value": {"display_title": "4DNFIUTUV5D3.fastq.gz", "accession": "4DNFIUTUV5D3", "status": "released", "@type": ["FileFastq", "File", "Item"], "@id": "/files-fastq/4DNFIUTUV5D3/", "filename": "SRR5517510_2.fastq.gz", "uuid": "f669ec35-f212-45c4-8bbb-1731eb25eb0d", "file_format": {"@type": ["FileFormat", "Item"], "status": "released", "uuid": "c13d06cf-218e-4f61-aaf0-91f226248b2c", "file_format": "fastq", "display_title": "fastq", "@id": "/file-formats/fastq/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}}], "workflow": {"uuid": "93a1a931-d55d-4623-adfb-0fa735daf6ae", "@id": "/workflows/4DNWFASTQFO1/", "title": "Getting first line of fastq file", "display_title": "Getting first line of fastq file - 4DNWFASTQFO1", "status": "released", "@type": ["Workflow", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "workflow_run_outputs": [], "@context": "/terms/", "aggregated-items": {}, "validation-errors": []}