EXPERIMENT_TITLE: GSM2386380: THP-1(HindIII); Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: Follow DLO Hi-C library construction protocol. Cells were double cross-linked with EGS and formaldehyde and then digested with a restriction enzyme. The digested chromatins were divided into two tubes, ligated with different 20-bp half linkers by the simultaneous digestion and ligation, and subsequently mixed for in-gel proximity ligation. The ligated DNA was purified and digested by MmeI, which released specific 80-bp DLO Hi-C DNA fragments. These DLO Hi-C DNA fragments were ligated with Illumina adapters and subjected to high-throughput sequencing
STUDY_DESCRIPTOR_STUDY_ABSTRACT: we developed a simple Digestion-Ligation-Only Hi-C (DLO Hi-C) technology to explore the 3D landscape of the genome Overall design: The DLO Hi-C library of K562 and THP-1
SAMPLE_TITLE: THP-1(HindIII)
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "peripheral blood monocyte cells"}, {"TAG": "tissue", "VALUE": "peripheral blood monocyte cells"}, {"TAG": "cell line", "VALUE": "THP-1"}]
Pool_Member_@attributes_sample_title: THP-1(HindIII)
RUN_SET_RUN_Pool_Member_@attributes_sample_title: THP-1(HindIII)
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "WGC079804-CGATGT_combined_R1.fastq.gz", "size": "9271454820", "date": "2020-04-02 15:41:19", "md5": "12e7d0ce000f929d2de053e042390cb5", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR5005053.sralite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-14/SRR005/005/SRR5005053.sralite.1", "size": "9538123993", "date": "2020-06-13 19:30:42", "md5": "49e4f366ac81338725609e4035d80aae", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR5005053", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR5005053/SRR5005053", "size": "19294539557", "date": "2016-11-08 19:05:22", "md5": "80ba40be776c64264b00b86650005ac9", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "WGC079804-CGATGT_combined_R2.fastq.gz", "size": "10689412414", "date": "2020-04-02 16:27:52", "md5": "b8967b80e3754dca0c4fcfca525812ff", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]