EXPERIMENT_TITLE: GSM5606802: A673-EWS/FLI-Rescue-HiC 1; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: AMPure XP bead extraction in situ Hi-C (high throughput chromatin conformation capture)
STUDY_DESCRIPTOR_STUDY_ABSTRACT: Ewing sarcoma is a prototypical fusion transcription factor-associated pediatric cancer that expresses EWS/FLI or highly related fusions. EWS/FLI dysregulates transcription to induce and maintain sarcomagenesis, but the mechanisms utilized are not fully understood. We therefore sought to define the global effects of EWS/FLI on chromatin conformation and transcription in Ewing sarcoma.  We found that EWS/FLI (and EWS/ERG) genomic localization is largely conserved across multiple patient-derived Ewing sarcoma cell lines. EWS/FLI binding is primarily associated with compartment activation, establishment of topologically-associated domain (TAD) boundaries, enhancer-promoter looping that involve both intra- and inter-TAD interactions, and gene activation.  Importantly, local chromatin features provide the basis for transcriptional heterogeneity in regulation of direct EWS/FLI target genes across different Ewing sarcoma cell lines.  These data demonstrate a key role of EWS/FLI in mediating genome-wide changes in chromatin configuration and support the notion that fusion transcription factors serve as master regulators through three-dimensional reprogramming of chromatin. Overall design: in situ Hi-C of A673 Ewing sarcoma cells transduced with shRNA targeting EWS/FLI or Luciferase followed by rescue of EWS/FLI expression with a 3X-FLAG tagged EWS/FLI cDNA construct or empty vector
SAMPLE_TITLE: A673-EWS/FLI-Rescue-HiC 1
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "A673 Ewing sarcoma cell line"}, {"TAG": "replicate", "VALUE": "1"}, {"TAG": "transduced shrna", "VALUE": "iEF + 3XFLAG-EWS/FLI"}, {"TAG": "condition", "VALUE": "EF-Rescue"}]
Pool_Member_@attributes_sample_title: A673-EWS/FLI-Rescue-HiC 1
RUN_SET_RUN: [{"IDENTIFIERS": {"PRIMARY_ID": "SRR16134783", "SUBMITTER_ID": "GSM5606802_r1"}, "EXPERIMENT_REF": null, "RUN_ATTRIBUTES": {"RUN_ATTRIBUTE": {"TAG": "loader", "VALUE": "fastq-load.py", "UNITS": null}}, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS10387925", "EXTERNAL_ID": ["SAMN21924342", "GSM5606802"]}, "@attributes": {"member_name": "", "accession": "SRS10387925", "sample_name": "GSM5606802", "sample_title": "A673-EWS/FLI-Rescue-HiC 1", "spots": "43587818", "bases": "13113900906", "tax_id": "9606", "organism": "Homo sapiens"}}}, "SRAFiles": {"SRAFile": [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR16134783.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos1/sra-pub-zq-38/SRR016/16134/SRR16134783/SRR16134783.lite.1", "size": "3383101594", "date": "2022-09-26 10:55:42", "md5": "14b0812e9728dabea69593139b105d17", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR16134783", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR16134783/SRR16134783", "size": "5913411246", "date": "2021-09-30 22:28:19", "md5": "350dac40dc7e4ed888b57d32a72d7942", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L001_R2_001.fastq.gz", "size": "4627250889", "date": "2021-09-30 22:24:53", "md5": "2b51fd8abfe43552a33e2eed614736b0", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L001_R1_001.fastq.gz", "size": "3809619285", "date": "2021-09-30 22:23:16", "md5": "f827ddcd4ea5acc4b01b5f96ab0dba16", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": [null, null], "@attributes": {"nreads": "2", "nspots": "43587818"}}, "Databases": {"Database": {"Table": {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SEQUENCE"}}}}, "Bases": {"Base": [null, null, null, null, null], "@attributes": {"cs_native": "false", "count": "13113900906"}}, "@attributes": {"alias": "GSM5606802_r1", "accession": "SRR16134783", "total_spots": "43587818", "total_bases": "13113900906", "size": "5913408745", "load_done": "true", "published": "2022-08-17 09:04:16", "is_public": "true", "cluster_name": "public", "has_taxanalysis": "1", "static_data_available": "1"}}, {"IDENTIFIERS": {"PRIMARY_ID": "SRR16134784", "SUBMITTER_ID": "GSM5606802_r2"}, "EXPERIMENT_REF": null, "RUN_ATTRIBUTES": {"RUN_ATTRIBUTE": {"TAG": "loader", "VALUE": "fastq-load.py", "UNITS": null}}, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS10387925", "EXTERNAL_ID": ["SAMN21924342", "GSM5606802"]}, "@attributes": {"member_name": "", "accession": "SRS10387925", "sample_name": "GSM5606802", "sample_title": "A673-EWS/FLI-Rescue-HiC 1", "spots": "45513164", "bases": "13692965864", "tax_id": "9606", "organism": "Homo sapiens"}}}, "SRAFiles": {"SRAFile": [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR16134784.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos1/sra-pub-zq-38/SRR016/16134/SRR16134784/SRR16134784.lite.1", "size": "3531681311", "date": "2022-09-26 11:02:00", "md5": "b5b5b47ea6fcbd725896131db3c9aaf8", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR16134784", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR16134784/SRR16134784", "size": "6178366775", "date": "2021-09-30 23:22:37", "md5": "78ad4087542970df80f2808d3dc3540a", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L002_R2_001.fastq.gz", "size": "4795688374", "date": "2021-09-30 22:54:17", "md5": "7ae93d507a402872721b4804920efe1c", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L002_R1_001.fastq.gz", "size": "4020029663", "date": "2021-09-30 22:29:39", "md5": "b8c89ca8a1123de836b2ed9bedeaf78a", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": [null, null], "@attributes": {"nreads": "2", "nspots": "45513164"}}, "Databases": {"Database": {"Table": {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SEQUENCE"}}}}, "Bases": {"Base": [null, null, null, null, null], "@attributes": {"cs_native": "false", "count": "13692965864"}}, "@attributes": {"alias": "GSM5606802_r2", "accession": "SRR16134784", "total_spots": "45513164", "total_bases": "13692965864", "size": "6178364279", "load_done": "true", "published": "2022-08-17 09:04:16", "is_public": "true", "cluster_name": "public", "has_taxanalysis": "1", "static_data_available": "1"}}, {"IDENTIFIERS": {"PRIMARY_ID": "SRR16134785", "SUBMITTER_ID": "GSM5606802_r3"}, "EXPERIMENT_REF": null, "RUN_ATTRIBUTES": {"RUN_ATTRIBUTE": {"TAG": "loader", "VALUE": "fastq-load.py", "UNITS": null}}, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS10387925", "EXTERNAL_ID": ["SAMN21924342", "GSM5606802"]}, "@attributes": {"member_name": "", "accession": "SRS10387925", "sample_name": "GSM5606802", "sample_title": "A673-EWS/FLI-Rescue-HiC 1", "spots": "45592373", "bases": "13716812344", "tax_id": "9606", "organism": "Homo sapiens"}}}, "SRAFiles": {"SRAFile": [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR16134785.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos1/sra-pub-zq-38/SRR016/16134/SRR16134785/SRR16134785.lite.1", "size": "3537615259", "date": "2022-09-26 10:55:50", "md5": "e940cfa9ae6baa711fbe70e9f7605ee6", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR16134785", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR16134785/SRR16134785", "size": "6162892551", "date": "2021-09-30 21:41:31", "md5": "e3ff4c7fea0cb3243ca6dc1ea6b47079", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L003_R2_001.fastq.gz", "size": "4774326632", "date": "2021-09-30 21:40:46", "md5": "1968833918e52abbc4a53876b33b7892", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L003_R1_001.fastq.gz", "size": "4030369015", "date": "2021-09-30 21:40:20", "md5": "5e2fd8122f8ecb08c6de5bc8331d4de0", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": [null, null], "@attributes": {"nreads": "2", "nspots": "45592373"}}, "Databases": {"Database": {"Table": {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SEQUENCE"}}}}, "Bases": {"Base": [null, null, null, null, null], "@attributes": {"cs_native": "false", "count": "13716812344"}}, "@attributes": {"alias": "GSM5606802_r3", "accession": "SRR16134785", "total_spots": "45592373", "total_bases": "13716812344", "size": "6162890050", "load_done": "true", "published": "2022-08-17 09:04:16", "is_public": "true", "cluster_name": "public", "has_taxanalysis": "1", "static_data_available": "1"}}, {"IDENTIFIERS": {"PRIMARY_ID": "SRR16134786", "SUBMITTER_ID": "GSM5606802_r4"}, "EXPERIMENT_REF": null, "RUN_ATTRIBUTES": {"RUN_ATTRIBUTE": {"TAG": "loader", "VALUE": "fastq-load.py", "UNITS": null}}, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS10387925", "EXTERNAL_ID": ["SAMN21924342", "GSM5606802"]}, "@attributes": {"member_name": "", "accession": "SRS10387925", "sample_name": "GSM5606802", "sample_title": "A673-EWS/FLI-Rescue-HiC 1", "spots": "45402625", "bases": "13659580509", "tax_id": "9606", "organism": "Homo sapiens"}}}, "SRAFiles": {"SRAFile": [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR16134786.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos1/sra-pub-zq-38/SRR016/16134/SRR16134786/SRR16134786.lite.1", "size": "3522731644", "date": "2022-10-05 04:23:46", "md5": "aa9ff7906c2734b2107f60c258faf67a", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR16134786", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR16134786/SRR16134786", "size": "6141975140", "date": "2021-09-30 21:28:44", "md5": "2a57d22c6ce922c6c3714d27c2219f99", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L004_R2_001.fastq.gz", "size": "4761672131", "date": "2021-09-30 21:27:51", "md5": "25ee9879afaac4b8937a3cc11358b068", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L004_R1_001.fastq.gz", "size": "4011309770", "date": "2021-09-30 21:27:29", "md5": "83148a031ed23bc78a0c9e4c86e25ad2", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": [null, null], "@attributes": {"nreads": "2", "nspots": "45402625"}}, "Databases": {"Database": {"Table": {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SEQUENCE"}}}}, "Bases": {"Base": [null, null, null, null, null], "@attributes": {"cs_native": "false", "count": "13659580509"}}, "@attributes": {"alias": "GSM5606802_r4", "accession": "SRR16134786", "total_spots": "45402625", "total_bases": "13659580509", "size": "6141972638", "load_done": "true", "published": "2022-08-17 09:04:16", "is_public": "true", "cluster_name": "public", "has_taxanalysis": "1", "static_data_available": "1"}}, {"IDENTIFIERS": {"PRIMARY_ID": "SRR16134787", "SUBMITTER_ID": "GSM5606802_r5"}, "EXPERIMENT_REF": null, "RUN_ATTRIBUTES": {"RUN_ATTRIBUTE": {"TAG": "loader", "VALUE": "fastq-load.py", "UNITS": null}}, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS10387925", "EXTERNAL_ID": ["SAMN21924342", "GSM5606802"]}, "@attributes": {"member_name": "", "accession": "SRS10387925", "sample_name": "GSM5606802", "sample_title": "A673-EWS/FLI-Rescue-HiC 1", "spots": "44390291", "bases": "13355037087", "tax_id": "9606", "organism": "Homo sapiens"}}}, "SRAFiles": {"SRAFile": [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR16134787.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos3/sra-pub-zq-24/SRR016/16134/SRR16134787/SRR16134787.lite.1", "size": "3452345676", "date": "2022-08-26 07:54:28", "md5": "9dd49739637b6751ae52825817176634", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR16134787", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR16134787/SRR16134787", "size": "5987539700", "date": "2021-09-30 22:26:51", "md5": "a63e0712012186aa88a2edcee661ba08", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L005_R2_001.fastq.gz", "size": "4656405843", "date": "2021-09-30 22:24:41", "md5": "8161754823c44e58b23304c4f0559292", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L005_R1_001.fastq.gz", "size": "3906176788", "date": "2021-09-30 22:23:10", "md5": "bf850ffafd7c262927ae2c93ab52c36f", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": [null, null], "@attributes": {"nreads": "2", "nspots": "44390291"}}, "Databases": {"Database": {"Table": {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SEQUENCE"}}}}, "Bases": {"Base": [null, null, null, null, null], "@attributes": {"cs_native": "false", "count": "13355037087"}}, "@attributes": {"alias": "GSM5606802_r5", "accession": "SRR16134787", "total_spots": "44390291", "total_bases": "13355037087", "size": "5987537199", "load_done": "true", "published": "2022-08-17 09:04:16", "is_public": "true", "cluster_name": "public", "has_taxanalysis": "1", "static_data_available": "1"}}, {"IDENTIFIERS": {"PRIMARY_ID": "SRR16134788", "SUBMITTER_ID": "GSM5606802_r6"}, "EXPERIMENT_REF": null, "RUN_ATTRIBUTES": {"RUN_ATTRIBUTE": {"TAG": "loader", "VALUE": "fastq-load.py", "UNITS": null}}, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS10387925", "EXTERNAL_ID": ["SAMN21924342", "GSM5606802"]}, "@attributes": {"member_name": "", "accession": "SRS10387925", "sample_name": "GSM5606802", "sample_title": "A673-EWS/FLI-Rescue-HiC 1", "spots": "45401274", "bases": "13659286978", "tax_id": "9606", "organism": "Homo sapiens"}}}, "SRAFiles": {"SRAFile": [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L006_R1_001.fastq.gz", "size": "3990025181", "date": "2021-09-30 22:26:04", "md5": "66c79ce691a16f26e1d147ea502d0335", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L006_R2_001.fastq.gz", "size": "4736558577", "date": "2021-09-30 22:24:08", "md5": "230cecfcb13656b6ea1bf1177a2d0996", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR16134788", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR16134788/SRR16134788", "size": "6103996891", "date": "2021-09-30 22:34:14", "md5": "4f58df644b4607743e82086dd55e6741", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR16134788.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos1/sra-pub-zq-38/SRR016/16134/SRR16134788/SRR16134788.lite.1", "size": "3523014179", "date": "2022-09-30 17:39:00", "md5": "96fe6f9a1bc79c7e31adb9b453698d66", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": [null, null], "@attributes": {"nreads": "2", "nspots": "45401274"}}, "Databases": {"Database": {"Table": {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SEQUENCE"}}}}, "Bases": {"Base": [null, null, null, null, null], "@attributes": {"cs_native": "false", "count": "13659286978"}}, "@attributes": {"alias": "GSM5606802_r6", "accession": "SRR16134788", "total_spots": "45401274", "total_bases": "13659286978", "size": "6103994393", "load_done": "true", "published": "2022-08-17 09:04:16", "is_public": "true", "cluster_name": "public", "has_taxanalysis": "1", "static_data_available": "1"}}, {"IDENTIFIERS": {"PRIMARY_ID": "SRR16134789", "SUBMITTER_ID": "GSM5606802_r7"}, "EXPERIMENT_REF": null, "RUN_ATTRIBUTES": {"RUN_ATTRIBUTE": {"TAG": "loader", "VALUE": "fastq-load.py", "UNITS": null}}, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS10387925", "EXTERNAL_ID": ["SAMN21924342", "GSM5606802"]}, "@attributes": {"member_name": "", "accession": "SRS10387925", "sample_name": "GSM5606802", "sample_title": "A673-EWS/FLI-Rescue-HiC 1", "spots": "44958410", "bases": "13526494012", "tax_id": "9606", "organism": "Homo sapiens"}}}, "SRAFiles": {"SRAFile": [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L007_R1_001.fastq.gz", "size": "3965215854", "date": "2021-09-30 22:30:52", "md5": "017f5deb30b23426fb928f48095fbea8", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L007_R2_001.fastq.gz", "size": "4699655133", "date": "2021-09-30 22:29:08", "md5": "1b4549666d23e4f4bf144afae9897e55", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR16134789", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR16134789/SRR16134789", "size": "6061783819", "date": "2021-09-30 22:34:58", "md5": "687207e9d34fb5c79150543f93444321", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR16134789.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos3/sra-pub-zq-24/SRR016/16134/SRR16134789/SRR16134789.lite.1", "size": "3488694267", "date": "2022-08-28 23:58:18", "md5": "4c0a059fce6e6709decd53b492294089", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": [null, null], "@attributes": {"nreads": "2", "nspots": "44958410"}}, "Databases": {"Database": {"Table": {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SEQUENCE"}}}}, "Bases": {"Base": [null, null, null, null, null], "@attributes": {"cs_native": "false", "count": "13526494012"}}, "@attributes": {"alias": "GSM5606802_r7", "accession": "SRR16134789", "total_spots": "44958410", "total_bases": "13526494012", "size": "6061781316", "load_done": "true", "published": "2022-08-17 09:04:16", "is_public": "true", "cluster_name": "public", "has_taxanalysis": "1", "static_data_available": "1"}}, {"IDENTIFIERS": {"PRIMARY_ID": "SRR16134790", "SUBMITTER_ID": "GSM5606802_r8"}, "EXPERIMENT_REF": null, "RUN_ATTRIBUTES": {"RUN_ATTRIBUTE": {"TAG": "loader", "VALUE": "fastq-load.py", "UNITS": null}}, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS10387925", "EXTERNAL_ID": ["SAMN21924342", "GSM5606802"]}, "@attributes": {"member_name": "", "accession": "SRS10387925", "sample_name": "GSM5606802", "sample_title": "A673-EWS/FLI-Rescue-HiC 1", "spots": "45361987", "bases": "13647565352", "tax_id": "9606", "organism": "Homo sapiens"}}}, "SRAFiles": {"SRAFile": [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L008_R1_001.fastq.gz", "size": "3984966881", "date": "2021-09-30 22:50:08", "md5": "9ea73a8b0998f23dfa2264b08d39c555", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A673_iEF_714_Rep1_S7_L008_R2_001.fastq.gz", "size": "4749895085", "date": "2021-09-30 22:51:47", "md5": "14dd30a031d6a9f6bb32fd60dd2e34af", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR16134790", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR16134790/SRR16134790", "size": "6114596689", "date": "2021-09-30 22:56:32", "md5": "6f1393bfd53e71936293582d28091dc6", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR16134790.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos3/sra-pub-zq-24/SRR016/16134/SRR16134790/SRR16134790.lite.1", "size": "3519849441", "date": "2022-11-17 06:35:04", "md5": "8c5ee18123f1cfa22084ea91d29083aa", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": [null, null], "@attributes": {"nreads": "2", "nspots": "45361987"}}, "Databases": {"Database": {"Table": {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SEQUENCE"}}}}, "Bases": {"Base": [null, null, null, null, null], "@attributes": {"cs_native": "false", "count": "13647565352"}}, "@attributes": {"alias": "GSM5606802_r8", "accession": "SRR16134790", "total_spots": "45361987", "total_bases": "13647565352", "size": "6114594193", "load_done": "true", "published": "2022-08-17 09:04:16", "is_public": "true", "cluster_name": "public", "has_taxanalysis": "1", "static_data_available": "1"}}]