EXPERIMENT_TITLE: GSM5411174: A549-ACE2 Mock rep2 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 rep2 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 rep2 Hi-C
RUN_SET_RUN_Pool_Member_@attributes_sample_title: A549-ACE2 Mock rep2 Hi-C
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR15000189.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos4/sra-pub-zq-1/SRR015/15000/SRR15000189/SRR15000189.lite.1", "size": "11134755083", "date": "2022-08-18 22:30:33", "md5": "2354be8b96a189252b2ac1771054f314", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR15000189", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR15000189/SRR15000189", "size": "17367750083", "date": "2021-07-02 05:33:16", "md5": "8347312c0b251125f0bf6147a527c801", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "NS74-NS67-HiC2_R2.fastq.gz", "size": "21615931912", "date": "2021-07-02 05:28:08", "md5": "5c248fbf38245c657988ce24ee63a143", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "NS74-NS67-HiC2_R1.fastq.gz", "size": "21310424323", "date": "2021-07-02 05:25:38", "md5": "11a1db571dd41e403f9a472f257d7e0d", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]