EXPERIMENT_TITLE: GSM5966524: A549-ACE2 HI-WA1 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 manufacturer'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 HI-WA1 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": "heat-inactivated SARS-CoV-2"}]
Pool_Member_@attributes_sample_title: A549-ACE2 HI-WA1 rep2 Hi-C
RUN_SET_RUN_Pool_Member_@attributes_sample_title: A549-ACE2 HI-WA1 rep2 Hi-C
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A549-ACE2-NS97-HI-WA1-HiC-rep2_R1.fastq.gz", "size": "1861463598", "date": "2022-03-22 21:26:14", "md5": "ec22bedd988176d7273f3fe548a5a1b0", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "A549-ACE2-NS97-HI-WA1-HiC-rep2_R2.fastq.gz", "size": "1844097077", "date": "2022-03-22 20:57:40", "md5": "374c39696439f35b6fa2a225c7f3873e", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR18438217", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR18438217/SRR18438217", "size": "1866539533", "date": "2022-03-22 22:22:00", "md5": "4ec9590cb1c604d52f05168854a5fde1", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR18438217.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos2/sra-pub-zq-20/SRR018/18438/SRR18438217/SRR18438217.lite.1", "size": "1210016177", "date": "2022-08-06 08:12:09", "md5": "3c9a10dee0512df6480b83232368cadb", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]