EXPERIMENT_TITLE: GSM5411173: A549-ACE2 Mock rep1 Hi-C; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: Lysates were clarified from sonicated nuclei and biotin-labelled DNA were isolated with C1 beads DNA libraries were prepared using NEB Next Ultra II DNA library prep kit for illumina according to manufactorer's instructions
STUDY_DESCRIPTOR_STUDY_ABSTRACT: Many viruses can significantly impact host chromatin, but such roles of SARS-CoV-2 are unknown. Here, we characterized the three-dimensional (3D) genome architecture and epigenome landscapes in human cells after SARS-CoV-2 infection, revealing remarkable restructuring of host chromatin architectures. Overall design: We utlizied Hi-C 3.0, spike-in calibrated ChIP-Seq to map the alterations of 3D genome and epigenome in SARS-CoV-2 infected human cells
SAMPLE_TITLE: A549-ACE2 Mock rep1 Hi-C
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "A549-hACE2"}, {"TAG": "cell line", "VALUE": "A549-hACE2"}, {"TAG": "cell type", "VALUE": "epithelial cell"}, {"TAG": "treatment", "VALUE": "mock"}, {"TAG": "chip antibody", "VALUE": "N.A."}]
Pool_Member_@attributes_sample_title: A549-ACE2 Mock rep1 Hi-C
RUN_SET_RUN_Pool_Member_@attributes_sample_title: A549-ACE2 Mock rep1 Hi-C
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR15000188.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos4/sra-pub-zq-1/SRR015/15000/SRR15000188/SRR15000188.lite.1", "size": "10520919612", "date": "2022-07-28 20:32:46", "md5": "bc3e9622b69980d487d13042dc5713ba", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR15000188", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR15000188/SRR15000188", "size": "16322228888", "date": "2021-07-02 06:35:32", "md5": "20139c41c4ae31758b23f7eee9d9e6f5", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "NS74-NS67-HiC1_R2.fastq.gz", "size": "20085280777", "date": "2021-07-02 06:23:41", "md5": "a48f3c5ca2265f5b36c94c9b54240c03", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "NS74-NS67-HiC1_R1.fastq.gz", "size": "19923902484", "date": "2021-07-02 06:14:25", "md5": "c5548a63bfb9c10f90dad342349166b1", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]