EXPERIMENT_TITLE: Arima HiC replicate 1 lane 2
STUDY_DESCRIPTOR_STUDY_ABSTRACT: We have sequenced the CHM13hTERT human cell line on the Oxford Nanopore GridION. We have also sequenced approximately 50x coverage using 10X Genomics as well as BioNano DLS and Arima Genomics HiC. PacBio data for this cell line has been previously generated by the Washington University School of Medicine and the University of Washington, and is available from NCBI SRA.Human genomic DNA was extracted from the cultured cell line. As the DNA is native, modified bases will be preserved. We followed Josh Quick's ultra-long read (UL) protocol for library preparation and sequencing.
SAMPLE_TITLE: Human sample from CHM13htert cell line from Homo sapiens
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "isolate", "VALUE": "CHM13"}, {"TAG": "age", "VALUE": "0"}, {"TAG": "biomaterial_provider", "VALUE": "Urvashi Surti"}, {"TAG": "sex", "VALUE": "female"}, {"TAG": "tissue", "VALUE": "hydatidiform mole"}, {"TAG": "cell_line", "VALUE": "CHM13htert"}, {"TAG": "orgmod_note", "VALUE": "haploid cell line"}, {"TAG": "BioSampleModel", "VALUE": "Human"}]
Pool_Member_@attributes_sample_title: Human sample from CHM13htert cell line from Homo sapiens
RUN_SET_RUN_Pool_Member_@attributes_sample_title: Human sample from CHM13htert cell line from Homo sapiens
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "CHM13.rep1_lane2_R1.fastq.gz", "size": "15528451049", "date": "2021-03-04 07:07:13", "md5": "faf039c411317290f1dae1322cee71e8", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "CHM13.rep1_lane2_R2.fastq.gz", "size": "17753670259", "date": "2021-03-04 07:35:52", "md5": "3157fb032e8159de2de7485af62f7b61", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR13849429", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR13849429/SRR13849429", "size": "23079626776", "date": "2021-03-04 08:25:07", "md5": "f0c524790a153286272c85ebec988066", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR13849429.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos3/sra-pub-zq-24/SRR013/13849/SRR13849429/SRR13849429.lite.1", "size": "13023914272", "date": "2022-08-01 17:42:25", "md5": "f04dbc81894814e2b72a147cb00b3f92", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]