EXPERIMENT_TITLE: GSM7610394: intact Hi-C from activated CD8-positive, alpha-beta T cell (ENCLB571PTU); Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: general protocol: https://www.encodeproject.org/documents/4dfd0b02-ed3a-4461-b0f5-9ef51570af1f/@@download/attachment/intacthi-c_modularprotocol-release.pdf
SAMPLE_TITLE: ENCODE biosample ENCBS544JLP
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "ENCODE accession", "VALUE": "ENCBS544JLP"}, {"TAG": "sample type", "VALUE": "primary cell"}, {"TAG": "cell type", "VALUE": "activated CD8-positive, alpha-beta T cell"}, {"TAG": "sex", "VALUE": "male"}, {"TAG": "dev_stage", "VALUE": "adult"}, {"TAG": "age", "VALUE": "21 year"}, {"TAG": "donor ID", "VALUE": "ENCDO781BMZ"}, {"TAG": "lab", "VALUE": "Yijun Ruan, JAX"}, {"TAG": "source", "VALUE": "AllCells"}, {"TAG": "treatments", "VALUE": "treatment_term_name: anti-CD3 and anti-CD28 coated beads; treatment_type: antibody; duration: 36; duration_units: hour;"}]
Pool_Member_@attributes_sample_title: ENCODE biosample ENCBS544JLP
RUN_SET_RUN: [{"IDENTIFIERS": {"PRIMARY_ID": "SRR25419564", "SUBMITTER_ID": "GSM7610394_r1"}, "EXPERIMENT_REF": null, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS18417380", "EXTERNAL_ID": "SAMN35124131"}, "@attributes": {"member_name": "", "accession": "SRS18417380", "sample_name": "ENCODE biosample ENCBS544JLP", "sample_title": "ENCODE biosample ENCBS544JLP", "spots": "361838060", "bases": "85978405827", "tax_id": "9606", "organism": "Homo sapiens"}}}, "SRAFiles": {"SRAFile": [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR25419564.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-11/SRR025/25419/SRR25419564/SRR25419564.lite.1", "size": "25721912261", "date": "2023-08-13 05:59:15", "md5": "5409f9f5a70e406347821706d4802a70", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR25419564", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR25419564/SRR25419564", "size": "54272646548", "date": "2023-08-07 23:41:41", "md5": "40a204dec8b8993f809b5f3e7a0b97bd", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "ENCFF496FZL.fastq.gz", "size": "69371093186", "date": "2023-08-07 23:23:24", "md5": "43186895beb64584d12b2aa526a656c4", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": null, "@attributes": {"nreads": "1", "nspots": "361838060"}}, "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": "85978405827"}}, "@attributes": {"alias": "GSM7610394_r1", "accession": "SRR25419564", "total_spots": "361838060", "total_bases": "85978405827", "size": "54272644685", "load_done": "true", "published": "2023-08-08 00:38:21", "is_public": "true", "cluster_name": "public", "has_taxanalysis": "1", "static_data_available": "1"}}, {"IDENTIFIERS": {"PRIMARY_ID": "SRR25419565", "SUBMITTER_ID": "GSM7610394_r2"}, "EXPERIMENT_REF": null, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS18417380", "EXTERNAL_ID": "SAMN35124131"}, "@attributes": {"member_name": "", "accession": "SRS18417380", "sample_name": "ENCODE biosample ENCBS544JLP", "sample_title": "ENCODE biosample ENCBS544JLP", "spots": "112044714", "bases": "29629257448", "tax_id": "9606", "organism": "Homo sapiens"}}}, "SRAFiles": {"SRAFile": [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "ENCFF389HTC.fastq.gz", "size": "24190090143", "date": "2023-08-08 04:28:25", "md5": "4d243955a2122a4f7d08b8b3b28915e1", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR25419565", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR25419565/SRR25419565", "size": "18971123499", "date": "2023-08-08 04:30:20", "md5": "a2a1d5d678bf9dadb0afd3524d980cdf", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR25419565.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-11/SRR025/25419/SRR25419565/SRR25419565.lite.1", "size": "8734104141", "date": "2023-08-13 05:25:03", "md5": "96dd58c0ced36dddb46a66e95d894cc1", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": null, "@attributes": {"nreads": "1", "nspots": "112044714"}}, "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": "29629257448"}}, "@attributes": {"alias": "GSM7610394_r2", "accession": "SRR25419565", "total_spots": "112044714", "total_bases": "29629257448", "size": "18971121637", "load_done": "true", "published": "2023-08-08 04:50:37", "is_public": "true", "cluster_name": "public", "has_taxanalysis": "1", "static_data_available": "1"}}]